RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy630
(347 letters)
>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 = 106 bits (266), Expect = 8e-29
Identities = 23/75 (30%), Positives = 45/75 (60%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
+S + NKIFVG +P EL+++F ++G + +++D +GFGF+TF++++
Sbjct: 4 GSSGSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQ 63
Query: 62 AVDKVFSTDSHVLEG 76
+VD+ + H + G
Sbjct: 64 SVDQAVNMHFHDIMG 78
>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 = 105 bits (265), Expect = 2e-28
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
KIFVG LP+ + L+K+F +G I A V+ D+ TG S+G+GFVT ++ A ++
Sbjct: 16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
Query: 67 FSTDSHVLEG 76
+ +++G
Sbjct: 76 CKDPNPIIDG 85
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 103 bits (259), Expect = 5e-28
Identities = 26/67 (38%), Positives = 43/67 (64%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
KIFVG L + ++K +F ++G++ +A +MFDK T +GFGFVTF++++ V+KV
Sbjct: 1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEI 60
Query: 70 DSHVLEG 76
H +
Sbjct: 61 HFHEINN 67
>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 = 106 bits (266), Expect = 6e-28
Identities = 30/73 (41%), Positives = 47/73 (64%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
KIFVG + V E ++FFS++G I++A +M DK+TG S+GFGFVT+ + +AVD+V
Sbjct: 88 GKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ 147
Query: 69 TDSHVLEGSRLSI 81
+ ++ I
Sbjct: 148 NKFIDFKDRKIEI 160
Score = 98.4 bits (246), Expect = 5e-25
Identities = 25/71 (35%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
++ K+F+G L W + + L+++F +YG + + +M D TG S+GFGF++F+ +VD+
Sbjct: 1 KESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDE 60
Query: 66 VFSTDSHVLEG 76
V H+L+G
Sbjct: 61 VVK-TQHILDG 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 = 106 bits (268), Expect = 6e-28
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 3/92 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
KIFVG + + L+ +F +YG+I +M D+ +G +GF FVTF + ++VDK+
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164
Query: 69 TDSHVLEGSRLSI---QPSDSHNRMAENMEDR 97
H + G + + + R
Sbjct: 165 QKYHTVNGHNCEVRKALSKQEMASASSSQRGR 196
Score = 102 bits (256), Expect = 3e-26
Identities = 27/80 (33%), Positives = 44/80 (55%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
QL K+F+G L + + L+ F ++G + + VM D NT S+GFGFVT+ E VD
Sbjct: 12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
Query: 67 FSTDSHVLEGSRLSIQPSDS 86
+ H ++G + + + S
Sbjct: 72 MNARPHKVDGRVVEPKRAVS 91
>2cqu_A Peroxisomal D3,D2-enoyl-COA isomerase; acyl-COA binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 116
Score = 103 bits (259), Expect = 9e-28
Identities = 34/98 (34%), Positives = 52/98 (53%)
Query: 95 EDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSL 154
+ F + + + L K + LK YALYKQAT G CN+ KP +++ K+K++AWN+L
Sbjct: 17 QKDFENSMNQVKLLKKDPGNEVKLKLYALYKQATEGPCNMPKPGVFDLINKAKWDAWNAL 76
Query: 155 GQMAKSEAMSKYIALLKEVDAGWEDKEQEEINWDWKPN 192
G + K A Y+ L+ + E Q E D P+
Sbjct: 77 GSLPKEAARQNYVDLVSSLSPSLESSSQVEPGTDSGPS 114
>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 = 102 bits (257), Expect = 3e-27
Identities = 22/73 (30%), Positives = 41/73 (56%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
Q K+F+G L + + L+ ++ ++G++ + VM D + S+GFGFVTF + VD
Sbjct: 26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAA 85
Query: 67 FSTDSHVLEGSRL 79
+ H ++G +
Sbjct: 86 MAARPHSIDGRVV 98
>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 = 101 bits (253), Expect = 3e-27
Identities = 20/69 (28%), Positives = 37/69 (53%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
KIFVG L +++++F +G++ + + D T +GF F+TF+ +E V K+
Sbjct: 1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
Query: 70 DSHVLEGSR 78
H + S+
Sbjct: 61 KYHNVGLSK 69
>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA
complex, RRM, RBD, RNA binding protein- complex; NMR
{Mus musculus}
Length = 109
Score = 101 bits (254), Expect = 7e-27
Identities = 26/70 (37%), Positives = 41/70 (58%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
K+F+G L W + L+++F ++G++ VM D T S+GFGFVTF ++ VDKV
Sbjct: 24 SGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 83
Query: 67 FSTDSHVLEG 76
+ H L+
Sbjct: 84 LAQSRHELDS 93
>2cop_A Acyl-coenzyme A binding domain containing 6; acyl COA binding
protein, COA binding protein, lipid binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 109
Score = 101 bits (252), Expect = 1e-26
Identities = 36/96 (37%), Positives = 57/96 (59%)
Query: 89 RMAENMEDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKY 148
+ + + F +A +L L++ LL YA YKQ VG CN KPS+++ E K K+
Sbjct: 3 SGSSGLAELFEKAAAHLQGLIQVASREQLLYLYARYKQVKVGNCNTPKPSFFDFEGKQKW 62
Query: 149 NAWNSLGQMAKSEAMSKYIALLKEVDAGWEDKEQEE 184
AW +LG + S+AM +YIA++K++D GW + E+
Sbjct: 63 EAWKALGDSSPSQAMQEYIAVVKKLDPGWNPQIPEK 98
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1
Length = 77
Score = 99.5 bits (249), Expect = 2e-26
Identities = 26/67 (38%), Positives = 41/67 (61%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G L W + L+++F ++G++ VM D T S+GFGFVTF ++ VDKV +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 70 DSHVLEG 76
H L+
Sbjct: 62 SRHELDS 68
>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 = 100 bits (250), Expect = 2e-26
Identities = 27/70 (38%), Positives = 46/70 (65%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
++ K+FVG L W+ + L+ +FS+YG++++ +M DK T S+GFGFV F++ V V
Sbjct: 15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
Query: 67 FSTDSHVLEG 76
++ H L+G
Sbjct: 75 LASRPHTLDG 84
>1hbk_A ACBP, acyl-COA binding protein; fatty acid metabolism; HET: COA
MYR; 2.0A {Plasmodium falciparum} SCOP: a.11.1.1
Length = 89
Score = 99.2 bits (247), Expect = 3e-26
Identities = 26/89 (29%), Positives = 47/89 (52%), Gaps = 2/89 (2%)
Query: 93 NMEDRFNQACDYLPSLVK--KLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNA 150
+M F + ++ L + L + L Y YKQ+T+G CNI +PS + + KY A
Sbjct: 1 HMAQVFEECVSFINGLPRTINLPNELKLDLYKYYKQSTIGNCNIKEPSAHKYIDRKKYEA 60
Query: 151 WNSLGQMAKSEAMSKYIALLKEVDAGWED 179
W S+ + + +A +Y+ ++ E+ W+D
Sbjct: 61 WKSVENLNREDAQKRYVDIVSEIFPYWQD 89
>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 = 99.6 bits (249), Expect = 3e-26
Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ ++++ + + V LPW + +LK++FS +G+++ V D TG SKGFGFV F
Sbjct: 8 VKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEY 67
Query: 61 EAVDKVFSTDSHVLEG 76
E KV S H+++G
Sbjct: 68 ETQVKVMS-QRHMIDG 82
>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
Length = 87
Score = 97.6 bits (244), Expect = 9e-26
Identities = 27/70 (38%), Positives = 46/70 (65%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
K+FVG L W S +LK +F+++G++++ ++ D NTG S+GFGF+ F++ +V+KV
Sbjct: 10 DAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKV 69
Query: 67 FSTDSHVLEG 76
H L+G
Sbjct: 70 LDQKEHRLDG 79
>2lbb_A Acyl COA binding protein; protein binding, structural genomi
seattle structural genomics center for infectious
disease,; NMR {Babesia bovis}
Length = 96
Score = 97.7 bits (243), Expect = 1e-25
Identities = 32/96 (33%), Positives = 46/96 (47%), Gaps = 4/96 (4%)
Query: 85 DSHNRMAENMEDRFNQACDYLPSLVKK-LDSSTLLKFYALYKQATVGQCNIDKPSWYNME 143
H+ M+ D F+ A Y+ + + L FY YKQATVG CN KP ++
Sbjct: 4 HHHHHMSA---DDFDAAVKYVSNTTTMMASNDDKLCFYKYYKQATVGDCNKPKPGMLQLQ 60
Query: 144 AKSKYNAWNSLGQMAKSEAMSKYIALLKEVDAGWED 179
K K+ AWN+L M+ A Y+ LL + W +
Sbjct: 61 EKYKWEAWNALRGMSTESAKEAYVKLLDTLAPSWRN 96
>2cb8_A Acyl-COA-binding protein; acyl-coenzyme A binding protein, fatty
acid, acetylation, alternative splicing, lipid-binding,
transport; HET: MYA; 1.4A {Homo sapiens} PDB: 2fj9_A
1aca_A* 1hb6_A 1hb8_A 1nti_A 1nvl_A* 2abd_A 2fdq_A
Length = 87
Score = 97.6 bits (243), Expect = 1e-25
Identities = 27/83 (32%), Positives = 44/83 (53%)
Query: 95 EDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNSL 154
+ F +A + + L K +L Y YKQATVG N ++P + K+K++AWN L
Sbjct: 3 QAEFEKAAEEVRHLKTKPSDEEMLFIYGHYKQATVGDINTERPGMLDFTGKAKWDAWNEL 62
Query: 155 GQMAKSEAMSKYIALLKEVDAGW 177
+K +AM YI ++E+ +
Sbjct: 63 KGTSKEDAMKAYINKVEELKKKY 85
>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 = 98.2 bits (245), Expect = 1e-25
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 1/89 (1%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
R +F L + +L+ FFS G++ + ++ D+N+ SKG +V F ++V
Sbjct: 23 RDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPL 82
Query: 66 VFSTDSHVLEGSRLSIQPSDS-HNRMAEN 93
L G + +Q S + NR++
Sbjct: 83 AIGLTGQRLLGVPIIVQASQAEKNRLSGP 111
>1st7_A ACBP, acyl-COA-binding protein; four helix bundle, transport
protein; NMR {Saccharomyces cerevisiae}
Length = 86
Score = 96.9 bits (241), Expect = 2e-25
Identities = 29/84 (34%), Positives = 49/84 (58%)
Query: 94 MEDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNS 153
+ F + + L K + LL+ YALYKQATVG + +KP +NM+ + K+ AW +
Sbjct: 1 VSQLFEEKAKAVNELPTKPSTDELLELYALYKQATVGDNDKEKPGIFNMKDRYKWEAWEN 60
Query: 154 LGQMAKSEAMSKYIALLKEVDAGW 177
L ++ +A +YIAL+ ++ A +
Sbjct: 61 LKGKSQEDAEKEYIALVDQLIAKY 84
>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 = 94.2 bits (235), Expect = 3e-24
Identities = 24/73 (32%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
N +FVG + + E++ FF+ YG + ++ D+ TG+SKG+GFV+F N V K+
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
Query: 69 TDSHVLEGSRLSI 81
G +L +
Sbjct: 69 -SQINFHGKKLKL 80
>3epy_A Acyl-COA-binding domain-containing protein 7; acyl-COA binding
protein, fatty acid, lipid metabolism, structural
genomics; HET: COA PLM; 2.00A {Homo sapiens}
Length = 89
Score = 93.8 bits (233), Expect = 3e-24
Identities = 27/84 (32%), Positives = 46/84 (54%)
Query: 94 MEDRFNQACDYLPSLVKKLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNAWNS 153
++ F++A + + L + D L + Y LYKQA VG NI P +++ K+K+ AWN
Sbjct: 4 LQADFDRAAEDVRKLKARPDDGELKELYGLYKQAIVGDINIACPGMLDLKGKAKWEAWNL 63
Query: 154 LGQMAKSEAMSKYIALLKEVDAGW 177
++ +A S YI+ KE+ +
Sbjct: 64 KKGLSTEDATSAYISKAKELIEKY 87
>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 = 93.2 bits (232), Expect = 1e-23
Identities = 19/82 (23%), Positives = 35/82 (42%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ + + + +F+ NL + L + ++G + V+ +T SKG F F +
Sbjct: 8 LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQ 67
Query: 61 EAVDKVFSTDSHVLEGSRLSIQ 82
EA K + S EG L +
Sbjct: 68 EAAQKCLAAASLEAEGGGLKLD 89
>3fp5_A Acyl-COA binding protein; ACBP, cacao disease, fatty acid
metabolism, lipid binding protein; HET: MES; 1.61A
{Moniliophthora perniciosa}
Length = 106
Score = 91.9 bits (228), Expect = 2e-23
Identities = 30/94 (31%), Positives = 50/94 (53%), Gaps = 4/94 (4%)
Query: 95 EDRFNQACDYLPSLVK----KLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAKSKYNA 150
+ +F++A + + SL K K L FY +KQATVG NI +P + K+K++A
Sbjct: 5 KAKFDKAVEIVQSLPKDGPIKPTQDEQLYFYKYFKQATVGDVNISRPGLMDFTGKAKWDA 64
Query: 151 WNSLGQMAKSEAMSKYIALLKEVDAGWEDKEQEE 184
W S+ +K A KY+ L E+ + +E ++
Sbjct: 65 WKSVEGTSKEVAYQKYVEKLLEILKKADTEESKK 98
>3flv_A Acyl-COA-binding domain-containing protein 5; lipid binding,
structural genomics, struct genomics consortium, SGC,
lipid-binding, membrane; HET: STE COA; 1.70A {Homo
sapiens}
Length = 119
Score = 92.4 bits (229), Expect = 3e-23
Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 7/108 (6%)
Query: 84 SDSHNRMAENM---EDRFNQACDYLPSLVK----KLDSSTLLKFYALYKQATVGQCNIDK 136
D E RF A + SL K + + +LKFY+ YKQAT G C + +
Sbjct: 11 VDLGTENLYFQSMHETRFEAAVKVIQSLPKNGSFQPTNEMMLKFYSFYKQATEGPCKLSR 70
Query: 137 PSWYNMEAKSKYNAWNSLGQMAKSEAMSKYIALLKEVDAGWEDKEQEE 184
P +++ + K++AW+SLG M K EAM Y+ +K++ E+ E
Sbjct: 71 PGFWDPIGRYKWDAWSSLGDMTKEEAMIAYVEEMKKIIETMPMTEKVE 118
>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 = 91.0 bits (227), Expect = 3e-23
Identities = 21/74 (28%), Positives = 40/74 (54%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
I+VGN+ + + EL+ F G + +++ DK +G KGF ++ F +KE+V +
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLAL 67
Query: 70 DSHVLEGSRLSIQP 83
D + G ++ + P
Sbjct: 68 DESLFRGRQIKVIP 81
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 90.8 bits (226), Expect = 4e-23
Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+FV P V +L ++F +G + ASV+ DK+ G F V + A + V S
Sbjct: 10 SVFVSGFPRGVDSAQLSEYFLAFGPV--ASVVMDKDKG---VFAIVEMGDVGAREAVLSQ 64
Query: 70 DSHVLEGSRLSIQP 83
H L G RL ++P
Sbjct: 65 SQHSLGGHRLRVRP 78
>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 = 90.8 bits (226), Expect = 6e-23
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 4/85 (4%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
K+FVG L + + L++ FS+YGQI V+ D+ T S+GFGFVTF+N +
Sbjct: 13 GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMM 72
Query: 69 T-DSHVLEGSRLSI---QPSDSHNR 89
+ ++G ++ + S +
Sbjct: 73 AMNGKSVDGRQIRVDQAGKSSDNRS 97
>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 = 92.7 bits (231), Expect = 6e-23
Identities = 19/75 (25%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+F+G LP ++ +++K+ + +G + +++ D TGLSKG+ F + + D+ +
Sbjct: 95 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 154
Query: 69 T-DSHVLEGSRLSIQ 82
+ L +L +Q
Sbjct: 155 GLNGMQLGDKKLLVQ 169
Score = 80.0 bits (198), Expect = 3e-18
Identities = 16/96 (16%), Positives = 40/96 (41%), Gaps = 11/96 (11%)
Query: 5 IRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMN-----ASVMFDKNTGLSKGFGFVTFQN 59
+ +++VGN+P+ ++ + FF+ ++ + + K F F+ F++
Sbjct: 1 LGSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRS 60
Query: 60 KEAVDKVFSTDSHVLEGSRLSI------QPSDSHNR 89
+ + + D + +G L I QP ++
Sbjct: 61 VDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHK 96
>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 = 90.9 bits (226), Expect = 9e-23
Identities = 20/75 (26%), Positives = 39/75 (52%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
++VGN+ + + +L+ FS G I +++ DK +G KG+ ++ F + +VD +
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAM 97
Query: 70 DSHVLEGSRLSIQPS 84
D V G + + P
Sbjct: 98 DETVFRGRTIKVLPK 112
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 92.8 bits (231), Expect = 2e-22
Identities = 18/69 (26%), Positives = 40/69 (57%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
++ R N+I+V ++ +S +++K F +G+I +A++ D TG KG+GF+ ++
Sbjct: 118 LAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKA 177
Query: 61 EAVDKVFST 69
++ S+
Sbjct: 178 QSSQDAVSS 186
Score = 89.7 bits (223), Expect = 3e-21
Identities = 18/101 (17%), Positives = 49/101 (48%), Gaps = 1/101 (0%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++ +++++VG++ + + + +++ F+ +G I + + +D T KGF FV ++ E
Sbjct: 22 QGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPE 81
Query: 62 AVDKVFST-DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQA 101
A +S +L G + + + + ++ +A
Sbjct: 82 AAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEA 122
>2wh5_A Acyl-COA-binding domain-containing protein 4; alternative splicing,
fatty acid metabolism, lipid transport, lipid binding
protein; HET: STE ST9 COA; 2.60A {Homo sapiens}
Length = 106
Score = 89.3 bits (221), Expect = 2e-22
Identities = 32/99 (32%), Positives = 54/99 (54%), Gaps = 4/99 (4%)
Query: 90 MAENMEDRFNQACDYLPSLVK----KLDSSTLLKFYALYKQATVGQCNIDKPSWYNMEAK 145
+ + +F A + +L K + +L+FY+ YKQAT+G C + +P +++ +
Sbjct: 4 PEPDCQKQFQAAVSVIQNLPKNGSYRPSYEEMLRFYSYYKQATMGPCLVPRPGFWDPIGR 63
Query: 146 SKYNAWNSLGQMAKSEAMSKYIALLKEVDAGWEDKEQEE 184
K++AWNSLG+M++ EAMS YI +K V D
Sbjct: 64 YKWDAWNSLGKMSREEAMSAYITEMKLVAQKVIDTVPLG 102
>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 = 88.9 bits (221), Expect = 3e-22
Identities = 29/84 (34%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G +P + +LK F E+G+I +V+ D+ TG+ KG F+T+ +E+ K S
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74
Query: 70 --DSHVLEGSRLSIQ--PSDSHNR 89
+ L G IQ P+DS +R
Sbjct: 75 LHEQKTLPGMNRPIQVKPADSESR 98
>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 = 88.8 bits (221), Expect = 3e-22
Identities = 29/77 (37%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
++FV NL +T S +L+K FS YG + D T KGF FVTF E K ++
Sbjct: 9 GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYA 68
Query: 69 T-DSHVLEGSRLSIQPS 84
D V +G L + PS
Sbjct: 69 EVDGQVFQGRMLHVLPS 85
>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 = 88.4 bits (220), Expect = 4e-22
Identities = 20/57 (35%), Positives = 41/57 (71%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ ++V NLP+++++N+L + FS+YG+++ ++M DK+T SKG F+ F +K++
Sbjct: 17 STVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73
>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 = 87.9 bits (219), Expect = 4e-22
Identities = 18/57 (31%), Positives = 32/57 (56%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FVG+L V L+ F ++ ++ VM+D TG S+G+GFV+F +++
Sbjct: 2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQN 58
>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 = 90.3 bits (225), Expect = 5e-22
Identities = 20/69 (28%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
++V LP T++ EL++ FS+YG+I+ + ++ D+ TG+S+G GF+ F + ++
Sbjct: 90 NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 149
Query: 70 -DSHVLEGS 77
+ G+
Sbjct: 150 LNGQKPSGA 158
Score = 80.3 bits (199), Expect = 2e-18
Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 1/81 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+ V LP ++ E + F G+I + ++ DK TG S G+GFV + + + +K +T
Sbjct: 4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT 63
Query: 70 -DSHVLEGSRLSIQPSDSHNR 89
+ L+ + + + +
Sbjct: 64 LNGLRLQTKTIKVSYARPSSA 84
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 89.4 bits (222), Expect = 5e-22
Identities = 27/92 (29%), Positives = 48/92 (52%), Gaps = 7/92 (7%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV 63
+ + + V NL + S + L++ F +YG++ + + D+ T S+GF FV F +K
Sbjct: 43 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 102
Query: 64 DK-VFSTDSHVLEGSRLSIQ------PSDSHN 88
+ + + D VL+G L +Q P DSH+
Sbjct: 103 EDAMDAMDGAVLDGRELRVQMARYGRPPDSHH 134
>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 = 87.2 bits (217), Expect = 8e-22
Identities = 17/71 (23%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+++ L + +L K YG+I++ + DK T KG+GFV F + A K +
Sbjct: 7 GLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTA 66
Query: 70 -DSHVLEGSRL 79
+ ++
Sbjct: 67 LKASGVQAQMA 77
>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
Length = 88
Score = 86.9 bits (216), Expect = 1e-21
Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 9/84 (10%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ +FVG ++ +EL++FFS+YG +M+ + + F FVTF + + +
Sbjct: 6 SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP-----FRAFAFVTFADDQIAQSLCG 60
Query: 69 TDSHVLEGSRLSI---QPSDSHNR 89
D +++G + I +P + N
Sbjct: 61 ED-LIIKGISVHISNAEPKHNSNS 83
>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 = 86.5 bits (215), Expect = 2e-21
Identities = 20/57 (35%), Positives = 37/57 (64%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ ++VG+L + ++ + L+ F +G+I N +M D +TG SKG+GF+TF + E +
Sbjct: 6 SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARR 62
>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 = 86.2 bits (214), Expect = 3e-21
Identities = 22/60 (36%), Positives = 38/60 (63%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
R L +FVGN+P+ + +LK FSE G +++ +++D+ TG KG+GF +Q++E
Sbjct: 6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALS 65
>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 = 85.7 bits (213), Expect = 3e-21
Identities = 21/56 (37%), Positives = 34/56 (60%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FVG+L ++ + F+ +G+I +A V+ D TG SKG+GFV+F NK +
Sbjct: 8 HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAEN 63
>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 = 85.7 bits (213), Expect = 4e-21
Identities = 17/57 (29%), Positives = 33/57 (57%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ V L + +L++ FS+YG I + S+++D+ + S+GF FV F+N + +
Sbjct: 16 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 72
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 85.8 bits (213), Expect = 4e-21
Identities = 16/79 (20%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VF 67
+K+F+ LP++ + EL++ +G + + ++ ++ G KG +V ++N+ + V
Sbjct: 18 HKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVM 76
Query: 68 STDSHVLEGSRLSIQPSDS 86
D ++ + + + S+S
Sbjct: 77 KMDGMTIKENIIKVAISNS 95
>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 = 88.5 bits (220), Expect = 5e-21
Identities = 19/75 (25%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+K+F+G LP ++ +++K+ + +G + +++ D TGLSKG+ F + + D+ +
Sbjct: 115 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 174
Query: 69 T-DSHVLEGSRLSIQ 82
+ L +L +Q
Sbjct: 175 GLNGMQLGDKKLLVQ 189
Score = 80.8 bits (200), Expect = 2e-18
Identities = 16/110 (14%), Positives = 44/110 (40%), Gaps = 5/110 (4%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMN-----ASVMFDKNTGLSKGFGFVTFQNKE 61
+++VGN+P+ ++ + FF+ ++ + + K F F+ F++ +
Sbjct: 3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62
Query: 62 AVDKVFSTDSHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDYLPSLVKK 111
+ + D + +G L I+ + + E+ + ++V
Sbjct: 63 ETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPD 112
>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 = 87.7 bits (218), Expect = 5e-21
Identities = 22/91 (24%), Positives = 42/91 (46%), Gaps = 3/91 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+F+GNL S ELK SE + +V+ D TG ++ FG+V F++ E ++K
Sbjct: 14 FNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALE 72
Query: 69 TDSHVLEGSRLSIQPSDSHNRMAENMEDRFN 99
+ G+ + ++ R ++ +
Sbjct: 73 LTGLKVFGNEIKLEKPKG--RDSKKVRAART 101
Score = 75.7 bits (187), Expect = 1e-16
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 6/77 (7%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
R + NL + ++ +ELK+ F + +I G SKG ++ F+++ +K
Sbjct: 97 RAARTLLAKNLSFNITEDELKEVFEDALEI-----RLVSQDGKSKGIAYIEFKSEADAEK 151
Query: 66 VFST-DSHVLEGSRLSI 81
++G +S+
Sbjct: 152 NLEEKQGAEIDGRSVSL 168
>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 = 84.9 bits (211), Expect = 6e-21
Identities = 21/72 (29%), Positives = 42/72 (58%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
I+VGNL ++ + ++K+ FS++G++ N +++D+ T KGFGFV Q + + +
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKL 62
Query: 70 DSHVLEGSRLSI 81
D+ G + +
Sbjct: 63 DNTDFMGRTIRV 74
>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 = 87.2 bits (217), Expect = 6e-21
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
++V NLP T++ ++L F +YG I+ +++ DK TG +G FV + +E + S
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 69 T-DSHVLEGS 77
++ + EG
Sbjct: 150 ALNNVIPEGG 159
Score = 80.3 bits (199), Expect = 2e-18
Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 1/81 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+ V LP ++ EL F G I +M D TG S G+ FV F ++ +
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 64
Query: 70 -DSHVLEGSRLSIQPSDSHNR 89
+ + RL + +
Sbjct: 65 LNGITVRNKRLKVSYARPGGE 85
>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 = 86.3 bits (214), Expect = 6e-21
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ V L + +L++ FS+YG I + S+++D+ + S+GF FV F+N + +
Sbjct: 47 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 106
Query: 69 T-DSHVLEGSRLSIQ 82
+ L+G R+ +
Sbjct: 107 RANGMELDGRRIRVD 121
>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 = 86.3 bits (214), Expect = 6e-21
Identities = 18/57 (31%), Positives = 32/57 (56%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ V +P TV +L++ F YG I + ++ D+ T S+G+GFV FQ+ + +
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQ 99
>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 = 85.5 bits (212), Expect = 7e-21
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
K+F+G L + LK F ++G I ++ D+ T S+GF F+TF+N
Sbjct: 8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAK 66
Query: 69 T-DSHVLEG 76
+ L G
Sbjct: 67 DMNGKSLHG 75
>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 = 85.4 bits (212), Expect = 8e-21
Identities = 23/93 (24%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VF 67
+ +FV NL + V +LK+ FS G ++ A ++ DK+ G S+G G VTF+ + +
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAIS 74
Query: 68 STDSHVLEGSRLSIQPSDSHNRMAENMEDRFNQ 100
+ +L + + +M E + +
Sbjct: 75 MFNGQLLFDRPMHV-------KMDERALPKGDF 100
>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 = 85.1 bits (211), Expect = 9e-21
Identities = 22/56 (39%), Positives = 36/56 (64%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FVG+L ++ ++K F+ +G+I +A V+ D TG SKG+GFV+F NK +
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAEN 72
>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 = 84.2 bits (209), Expect = 1e-20
Identities = 16/57 (28%), Positives = 23/57 (40%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 69
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA
recognition motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 84.7 bits (210), Expect = 1e-20
Identities = 20/56 (35%), Positives = 32/56 (57%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+F+ +LP + +L F +G +++A V DK T LSK FGFV+F N ++
Sbjct: 42 NLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQV 97
>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 = 83.7 bits (208), Expect = 2e-20
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 3/65 (4%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
M+ + R ++VG L V L F +G I + + D T +GF FV F+
Sbjct: 3 MATTKR---VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELA 59
Query: 61 EAVDK 65
E
Sbjct: 60 EDAAA 64
>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 = 84.2 bits (209), Expect = 2e-20
Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK-EA 62
+ + + V NL + S + L++ F +YG++ + + + +T +GF FV F ++ +A
Sbjct: 9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDA 68
Query: 63 VDKVFSTDSHVLEGSRLSIQ 82
D + D L+G L +Q
Sbjct: 69 QDAEAAMDGAELDGRELRVQ 88
>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}
Length = 89
Score = 83.0 bits (206), Expect = 3e-20
Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+K+FVG ++ EL++FF +YG++++ + + F FVTF + +
Sbjct: 9 HHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP-----FRAFAFVTFADDKVAQS 63
Query: 66 VFSTDSHVLEGSRLSI 81
+ D +++G + I
Sbjct: 64 LCGED-LIIKGISVHI 78
>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 = 83.9 bits (208), Expect = 3e-20
Identities = 19/57 (33%), Positives = 31/57 (54%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+F+ +LP +L + F +G +++A V DK T LSK FGFV++ N +
Sbjct: 26 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQA 82
>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 = 83.4 bits (207), Expect = 3e-20
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
I V NL +L++ F +G I + DK TG SKGF F++F +E +
Sbjct: 16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAAR 72
>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 = 85.3 bits (212), Expect = 3e-20
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FVG+L V L+ F ++ ++ VM+D TG S+G+GFV+F +++
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQN 144
Score = 69.1 bits (170), Expect = 2e-14
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
++VGNL ++ + LK++F G I N +M DK + + FV + + T
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQT 60
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin
modification, transcription regulation, structural
genomics, structural genomics consortium; 1.30A {Homo
sapiens}
Length = 110
Score = 83.2 bits (206), Expect = 4e-20
Identities = 13/90 (14%), Positives = 27/90 (30%), Gaps = 4/90 (4%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
++ L V LK +YG++ ++ T G V F + +
Sbjct: 7 KEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVK 66
Query: 69 T-DSHVLEGSRLSIQ---PSDSHNRMAENM 94
+ G+ + Q + E +
Sbjct: 67 NLHLTSVMGNIIHAQLDIKGQQRMKYYELI 96
>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 = 84.9 bits (210), Expect = 5e-20
Identities = 23/80 (28%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV 63
+ + + V NL + S + L++ F +YG++ + + D+ T S+GF FV F +K
Sbjct: 66 DVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDA 125
Query: 64 DK-VFSTDSHVLEGSRLSIQ 82
+ + + D VL+G L +Q
Sbjct: 126 EDAMDAMDGAVLDGRELRVQ 145
>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 = 82.7 bits (205), Expect = 6e-20
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 4/80 (5%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTG---LSKGFGFVTFQNKEAVDK 65
+ +F+ NL ++ + LK FS+ G I + ++ KN LS GFGFV ++ E K
Sbjct: 6 SGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65
Query: 66 VFST-DSHVLEGSRLSIQPS 84
H ++G +L ++ S
Sbjct: 66 ALKQLQGHTVDGHKLEVRIS 85
>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 = 82.7 bits (205), Expect = 6e-20
Identities = 20/56 (35%), Positives = 36/56 (64%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+++VG+L + ++ + L+ F +G+I + +M D TG SKG+GF+TF + E K
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKK 83
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 84.2 bits (208), Expect = 7e-20
Identities = 18/95 (18%), Positives = 40/95 (42%), Gaps = 3/95 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYG--QIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
++VG+ W + +L + G ++ ++ G SKG+ V ++ +V K+
Sbjct: 56 AAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKL 115
Query: 67 FST-DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQ 100
VL G ++ ++P+ N + R +
Sbjct: 116 LELLPGKVLNGEKVDVRPATRQNLSQFEAQARKRE 150
>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 = 81.9 bits (203), Expect = 9e-20
Identities = 16/56 (28%), Positives = 33/56 (58%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+++G++P+ + ++ S G ++N +MFD TG SKG+ F+ F++ E+
Sbjct: 4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 59
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 82.9 bits (205), Expect = 1e-19
Identities = 16/57 (28%), Positives = 23/57 (40%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
++VG L V L F +G I + + D T +GF FV F+ E
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 120
>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 = 81.6 bits (202), Expect = 2e-19
Identities = 19/57 (33%), Positives = 37/57 (64%), Gaps = 2/57 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
++ V N+P+ +L++ F ++G+I++ ++F++ SKGFGFVTF+N D+
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADR 70
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 80.8 bits (200), Expect = 3e-19
Identities = 19/57 (33%), Positives = 37/57 (64%), Gaps = 2/57 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
++ V N+P+ +L++ F ++G+I++ ++F++ SKGFGFVTF+N D+
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADR 84
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription,
splicing, RNA processing, nonsense mediated D NMD,
HDAC, histone deacetylation; 1.90A {Homo sapiens}
Length = 88
Score = 80.3 bits (199), Expect = 3e-19
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN-TGLSKGFGFVTFQNKEAVDK 65
K+ +G L V+ + + + FS YG+I + ++ LSKG+ +V F+N + +K
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEK 62
>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 = 84.7 bits (210), Expect = 4e-19
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ V NL VS+ L++ FS++G + A V+ D + G + G GFV F K K
Sbjct: 94 THGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARK 152
Query: 66 V 66
Sbjct: 153 A 153
Score = 70.1 bits (172), Expect = 6e-14
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
Q ++FVGNLP ++ + K+ F YG+ + D +GFGF+ +++ +
Sbjct: 21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIA 74
Query: 67 FST-DSHVLEGSRLSI 81
+ D +L+ L I
Sbjct: 75 KAELDGTILKSRPLRI 90
>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 = 80.0 bits (198), Expect = 5e-19
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+F+GNL S ELK SE + +V+ D TG ++ FG+V F++ E ++K
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKALEL 77
Query: 70 DSHVLEGSRLSIQPS 84
+ G+ + ++
Sbjct: 78 TGLKVFGNEIKLEKP 92
>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 = 82.3 bits (204), Expect = 5e-19
Identities = 30/90 (33%), Positives = 47/90 (52%), Gaps = 6/90 (6%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGL--SKGFGFVTFQNKEAVDKVF 67
K+FVG +P T S +L++ F +YG + +V+ D++ SKG FVTF ++A +
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQ 64
Query: 68 ST--DSHVLEGSRLSIQ--PSDSHNRMAEN 93
+ + VL G IQ P+DS A
Sbjct: 65 NALHNMKVLPGMHHPIQMKPADSEKNNAVE 94
Score = 80.7 bits (200), Expect = 2e-18
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
K+F+G + + N+++ FS +GQI ++ GLS+G FVTF +
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVTFTTRAMAQTAIKA 155
Query: 70 --DSHVLEGS 77
+ +EG
Sbjct: 156 MHQAQTMEGC 165
>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 = 80.0 bits (198), Expect = 7e-19
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 3/81 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK-NTGLSKGFGFVTFQNKEAVDKVF 67
+KI V N+P+ + E+++ FS +G++ + TG +GFGFV F K+ K F
Sbjct: 16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 68 S--TDSHVLEGSRLSIQPSDS 86
+ S L G RL ++ +DS
Sbjct: 76 NALCHSTHLYGRRLVLEWADS 96
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 79.6 bits (197), Expect = 7e-19
Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+VGNLP+ ++ F + I + ++ DK+T KGF +V F +++ + +
Sbjct: 16 YTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALT 74
Query: 69 TDSHVLEGSRLSI 81
D +L L +
Sbjct: 75 YDGALLGDRSLRV 87
>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 = 79.6 bits (197), Expect = 7e-19
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ K K
Sbjct: 30 GKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALK 85
>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 = 80.1 bits (198), Expect = 1e-18
Identities = 14/57 (24%), Positives = 27/57 (47%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ +
Sbjct: 23 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQA 79
>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 = 79.2 bits (196), Expect = 1e-18
Identities = 20/59 (33%), Positives = 32/59 (54%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
Q ++VG L VS L + F + G ++N + D+ TG +G+GFV F ++E D
Sbjct: 14 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADY 72
>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 = 78.8 bits (195), Expect = 2e-18
Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
Q+ ++V NL + L+K FS +G I +A VM + G SKGFGFV F + E K
Sbjct: 14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATK 70
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A
{Homo sapiens} SCOP: d.58.7.1
Length = 106
Score = 78.8 bits (195), Expect = 2e-18
Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+FV + + ++ F+EYG+I N + D+ TG KG+ V ++ +
Sbjct: 24 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKE 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 = 78.8 bits (195), Expect = 2e-18
Identities = 14/56 (25%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+++ NLP ++ EL+ +GQ+++ ++ D +G S+G GF ++ E +
Sbjct: 27 NLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEA 81
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 78.4 bits (194), Expect = 2e-18
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+IFV NLP+ + LK F+E G ++ A + + G SKG G V F++ E ++
Sbjct: 9 CQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAER 63
>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 = 78.0 bits (193), Expect = 2e-18
Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 9/90 (10%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+S + K+ VGN+ T ++ EL+ F EYG ++ ++ K + FV +
Sbjct: 3 SGSSGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV--------KDYAFVHMERA 54
Query: 61 E-AVDKVFSTDSHVLEGSRLSIQPSDSHNR 89
E AV+ + D+ +G R+ +Q S S R
Sbjct: 55 EDAVEAIRGLDNTEFQGKRMHVQLSTSRLR 84
>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 = 79.0 bits (195), Expect = 2e-18
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ + K
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALK 91
>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 = 77.7 bits (192), Expect = 3e-18
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FVGNL V L + F + G + ++ D+ G K FGFV F++ E+V
Sbjct: 14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSY 72
>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 = 77.6 bits (192), Expect = 3e-18
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMN-ASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
IF+GNL + L FS +G I+ +M D +TG SKG+ F+ F + +A D
Sbjct: 7 GIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDA 63
>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 = 82.3 bits (204), Expect = 4e-18
Identities = 18/90 (20%), Positives = 40/90 (44%), Gaps = 1/90 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ V NLP +++ + ++ +G + +++ + TG SKG+GF + K++ + S
Sbjct: 96 ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS 155
Query: 69 T-DSHVLEGSRLSIQPSDSHNRMAENMEDR 97
L L + +D+ + R
Sbjct: 156 DLLGKPLGPRTLYVHWTDAGQLTPALLHSR 185
Score = 72.7 bits (179), Expect = 8e-15
Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 3/80 (3%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNE-LKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ ++ + V LP + + L + S + + G KGF + ++
Sbjct: 178 TPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQ-DGQLKGFAVLEYETA 236
Query: 61 EAVDK-VFSTDSHVLEGSRL 79
E ++ D L GS L
Sbjct: 237 EMAEEAQQQADGLSLGGSHL 256
Score = 62.7 bits (153), Expect = 2e-11
Identities = 20/86 (23%), Positives = 31/86 (36%), Gaps = 8/86 (9%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
R KI + LP V++ E+ S+Y + KG FVT N E +
Sbjct: 20 RNRRKILIRGLPGDVTNQEVHDLLSDYE-------LKYCFVDKYKGTAFVTLLNGEQAEA 72
Query: 66 VFST-DSHVLEGSRLSIQPSDSHNRM 90
+ L LS+Q + +
Sbjct: 73 AINAFHQSRLRERELSVQLQPTDALL 98
>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 = 77.3 bits (191), Expect = 5e-18
Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 9/87 (10%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNAS--------VMFDKNTGLSKGFGFVTF 57
N IFV L V+ + +F + G I + D+ TG KG V+F
Sbjct: 11 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSF 70
Query: 58 QNKEAVDKVFST-DSHVLEGSRLSIQP 83
+ + D G+ + +
Sbjct: 71 DDPPSAKAAIDWFDGKEFSGNPIKVSF 97
>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 = 76.9 bits (190), Expect = 5e-18
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 2/58 (3%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYG--QIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+++GNL W + +L + G I+ ++ G SKGF V ++ + K
Sbjct: 3 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKK 60
>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 = 80.9 bits (199), Expect = 6e-18
Identities = 19/96 (19%), Positives = 35/96 (36%), Gaps = 3/96 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYG--QIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+++GNL W + +L + G I+ ++ G SKGF V ++ + K+
Sbjct: 69 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKL 128
Query: 67 FST-DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQA 101
L G + P + M+ R
Sbjct: 129 MDLLPKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQ 164
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding
protein; NMR {Homo sapiens}
Length = 101
Score = 77.3 bits (191), Expect = 6e-18
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 6/76 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVDKVFS 68
K++VGNL EL++ FS YG + + + GF FV F++ ++A D V
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRG 56
Query: 69 TDSHVLEGSRLSIQPS 84
D V+ GSR+ ++ S
Sbjct: 57 LDGKVICGSRVRVELS 72
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 79.5 bits (196), Expect = 6e-18
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 9/93 (9%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
K+ V NL + VS ++++ F+E+G + A+V +D+ +G S G V F+ + K
Sbjct: 89 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMK 147
Query: 69 T-DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQ 100
L+G + IQ + + D +
Sbjct: 148 QYKGVPLDGRPMDIQ-------LVASQIDLEHH 173
>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 = 76.9 bits (190), Expect = 1e-17
Identities = 15/56 (26%), Positives = 30/56 (53%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FV ++ +E+++ F +YG+I N + D+ TG SKG+ V ++ +
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALA 83
>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 = 76.1 bits (188), Expect = 1e-17
Identities = 21/89 (23%), Positives = 47/89 (52%), Gaps = 9/89 (10%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S+ + K+F+GNLP + E++ F +YG+++ ++ K +GFV ++K
Sbjct: 2 SSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKT 53
Query: 62 -AVDKVFSTDSHVLEGSRLSIQPSDSHNR 89
A D + + + L G ++++ S + ++
Sbjct: 54 AAEDAIRNLHHYKLHGVNINVEASKNKSK 82
>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 = 76.9 bits (190), Expect = 1e-17
Identities = 25/109 (22%), Positives = 51/109 (46%), Gaps = 6/109 (5%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VF 67
IF+ NL ++ + L FS +G I++ V+ D+N SKG+GFV F+ +EA ++ +
Sbjct: 6 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIE 63
Query: 68 STDSHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDYLPSLVKKLDSST 116
+ +L ++ + E + +A ++ +K +
Sbjct: 64 KMNGMLLNDRKVFVGR---FKSRKEREAELGARAKEFTNVYIKNFGPGS 109
>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 = 75.7 bits (187), Expect = 1e-17
Identities = 20/89 (22%), Positives = 39/89 (43%), Gaps = 9/89 (10%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S S KIFVGN+ + EL+ F G+++ V+ K + FV + +
Sbjct: 3 SGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEA 54
Query: 62 -AVDKVFSTDSHVLEGSRLSIQPSDSHNR 89
A + + ++G R++++ S +
Sbjct: 55 DAKAAIAQLNGKEVKGKRINVELSTKGQK 83
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2,
alternate splicing factor)...; structure genomics, SURP
domain, splicing factor SF2; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 75.4 bits (186), Expect = 3e-17
Identities = 21/85 (24%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ +I+VGNLP + +++ F +YG I + + + F FV F++
Sbjct: 15 RGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG---GPPFAFVEFEDP 71
Query: 61 E-AVDKVFSTDSHVLEGSRLSIQPS 84
A D V+ D + +G RL ++
Sbjct: 72 RDAEDAVYGRDGYDYDGYRLRVEFP 96
>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 = 75.8 bits (187), Expect = 3e-17
Identities = 15/54 (27%), Positives = 26/54 (48%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+++ NL V+ +L F+ + + + F TG +G F+TF NKE
Sbjct: 26 KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEI 79
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 114
Score = 75.4 bits (185), Expect = 4e-17
Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 2/86 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDK--NTGLSKGFGFVTFQNKEAVDKV 66
K+FVG LP + +E+ F +G ++ + + KG+ F+ FQ + +V +
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQAL 68
Query: 67 FSTDSHVLEGSRLSIQPSDSHNRMAE 92
L + ++ +
Sbjct: 69 IDACLEEDGKLYLCVSSPTIKDKPVQ 94
>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 = 74.6 bits (184), Expect = 4e-17
Identities = 12/57 (21%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ NL + ++ +ELK+ F + + + G SKG ++ F+++ +K
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALE-----IRLVSQDGKSKGIAYIEFKSEADAEK 68
>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 = 75.0 bits (185), Expect = 4e-17
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 3/76 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
K+FVG L S ++ + F +G I +V+ + G SKG FV F +
Sbjct: 16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAAIH 74
Query: 69 T--DSHVLEGSRLSIQ 82
S + G+ S+
Sbjct: 75 ALHGSQTMPGASSSLV 90
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 74.3 bits (183), Expect = 5e-17
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQ--IMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+ I + N+ + + S Y + N ++ DK T ++GF FV + ++
Sbjct: 10 DTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQL 69
Query: 67 F 67
Sbjct: 70 L 70
>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 113
Score = 75.1 bits (185), Expect = 5e-17
Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 8/68 (11%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMN--------ASVMFDKNTGLSKGFGFVTF 57
+ I+V L +V+ ++L FF + G + + DK TG KG V++
Sbjct: 13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 72
Query: 58 QNKEAVDK 65
++
Sbjct: 73 EDPPTAKA 80
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 75.1 bits (185), Expect = 5e-17
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 8/65 (12%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNAS--------VMFDKNTGLSKGFGFVTFQNK 60
N IFV L V+ + +F + G I + D+ TG KG V+F +
Sbjct: 8 NTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDP 67
Query: 61 EAVDK 65
+
Sbjct: 68 PSAKA 72
>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 = 74.6 bits (184), Expect = 6e-17
Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKN-TGLSKGFGFVTFQNKEAVDKVFS 68
F+GNLP+ V+ +K+FF I + + + KGFG+ F++ +++ S
Sbjct: 17 TAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 75
Query: 69 TDSHVLEGSRLSI 81
+ L R+ +
Sbjct: 76 LNEESLGNKRIRV 88
>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 = 74.2 bits (183), Expect = 7e-17
Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNT-GLSKGFGFVTFQNKEAVDKVFS 68
F+GNLP+ V+ +K+FF I + + + KGFG+ F++ +++ S
Sbjct: 21 TAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 79
Query: 69 TDSHVLEGSRLSIQPSDS 86
+ L R+ + +D
Sbjct: 80 LNEESLGNRRIRVDVADQ 97
>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 = 74.4 bits (183), Expect = 7e-17
Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 1/89 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ N+P++++ ++ +F NA + N G G V F+N++ K
Sbjct: 16 VCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER 75
Query: 69 TDSHVLEGSRLSIQPSDSHNRMAENMEDR 97
L G + + M E ++
Sbjct: 76 LHRKKLNGREAFVHVV-TLEDMREIEKNP 103
>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 = 75.6 bits (186), Expect = 9e-17
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FV ++ +E+++ F +YG+I N + D+ TG SKG+ V ++ +
Sbjct: 73 WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALA 129
>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 = 73.9 bits (182), Expect = 1e-16
Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+ + NL ++ + L++ F + I + G SKG+ F+ F + E +
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFI----KVPQNQNGKSKGYAFIEFASFEDAKE 68
>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix,
SH3, ankyrin repeat, signaling protein, ANK repeat,
cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB:
3ehq_A
Length = 222
Score = 76.9 bits (190), Expect = 1e-16
Identities = 25/102 (24%), Positives = 43/102 (42%), Gaps = 8/102 (7%)
Query: 251 LDDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV 304
E+ AK G L +++ +N LD+ G L+WAC GH +
Sbjct: 64 NYVAEQAESIDNPLHEAAKRGNLSW-LRECLD-NRVGVNGLDKAGSTALYWACHGGHKDI 121
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
V+ L + ++N + GD L A + D+++ L+ G
Sbjct: 122 VEMLFTQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKG 163
Score = 72.3 bits (178), Expect = 4e-15
Identities = 21/99 (21%), Positives = 39/99 (39%), Gaps = 8/99 (8%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + G D+ V+ L + +NQ ++ G LH A +G+ +VQ
Sbjct: 100 NGLDKAGSTALYWACHGGHKDI-VEMLFTQPNIELNQQNKLGDTALHAAAWKGYADIVQL 158
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ K GA ++ + + D A L++ +
Sbjct: 159 LLAK-GARTDLRNIEKKLAFDMATNAACASLLKKKQGTD 196
Score = 62.3 bits (152), Expect = 1e-11
Identities = 20/99 (20%), Positives = 35/99 (35%), Gaps = 14/99 (14%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
D +G+ ++ + + E+ N LH A RG+L +
Sbjct: 37 DIIYITDMSDTNWWKGTSKGRTGLI-------PSNYVAEQAESIDNPLHEAAKRGNLSWL 89
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
+ ++ VN D G L +A H D++E L
Sbjct: 90 RECLDN-RVGVNGLDKAGSTALYWACHGGHKDIVEMLFT 127
Score = 53.8 bits (130), Expect = 1e-08
Identities = 10/83 (12%), Positives = 28/83 (33%), Gaps = 9/83 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N++N A +G D+ V+ L K + + A + +++
Sbjct: 134 NQQNKLGDTALHAAAWKGYADI-VQLLLA-KGARTDLRNIEKKLAFDMATNAACASLLKK 191
Query: 308 LIEKCGADVNVTDSDGDYGLDYA 330
A +++++ + +
Sbjct: 192 KQGT-DAVRTLSNAEDYLDDEDS 213
Score = 50.3 bits (121), Expect = 2e-07
Identities = 8/62 (12%), Positives = 15/62 (24%), Gaps = 1/62 (1%)
Query: 283 NQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
+ + G + A + L + D+ D + T LI
Sbjct: 6 PKPVKPGQVKVFRALYTFEPRTPDELYIE-EGDIIYITDMSDTNWWKGTSKGRTGLIPSN 64
Query: 343 VN 344
Sbjct: 65 YV 66
Score = 46.9 bits (112), Expect = 3e-06
Identities = 6/66 (9%), Positives = 17/66 (25%), Gaps = 6/66 (9%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+I + + +G ++ V D L A + +
Sbjct: 37 DIIYITDMSDTNWWKGTSKGRTGLIP------SNYVAEQAESIDNPLHEAAKRGNLSWLR 90
Query: 341 YLVNSG 346
+++
Sbjct: 91 ECLDNR 96
Score = 28.7 bits (65), Expect = 2.5
Identities = 6/55 (10%), Positives = 13/55 (23%), Gaps = 8/55 (14%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHL 302
+ +NI + L+K+ D + + H
Sbjct: 167 DLRNIEKKLAFDMATNAACAS-LLKKKQG-TDAVRTLSNAEDYLDDEDSDLEHHH 219
>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 = 73.4 bits (181), Expect = 1e-16
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FV L + LK+ F A ++ D+ TG SKGFGFV F ++E
Sbjct: 16 KTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKA 69
>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 = 76.9 bits (190), Expect = 3e-16
Identities = 12/109 (11%), Positives = 35/109 (32%), Gaps = 5/109 (4%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VF 67
+++ N P + + ++ + + + + S+ F ++ +KE V
Sbjct: 118 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 177
Query: 68 STDSHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDYLPSLVKKLDSST 116
+ +EG L + S+ + ++ L +
Sbjct: 178 KLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIM----IRNLSTEL 222
Score = 76.9 bits (190), Expect = 3e-16
Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 2/83 (2%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
R+L + V NLP + + N++ K+F G I++ V + F + F +
Sbjct: 39 RELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADS--LKKNFRFARIEFARYDGALA 96
Query: 66 VFSTDSHVLEGSRLSIQPSDSHN 88
+ V+ + + +
Sbjct: 97 AITKTHKVVGQNEIIVSHLTECT 119
Score = 75.8 bits (187), Expect = 9e-16
Identities = 16/82 (19%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 7 QLNKIFVGNLPWTVSH-NELKKFFSEYGQIMNASVMFD-KNTGLSKGFGFVTFQNKEAVD 64
+ +I + NL + N L++ F +G I ++ K + F+ F+NK++ +
Sbjct: 209 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAE 268
Query: 65 KVFSTDSHVLEGSRLSIQPSDS 86
+ + +L +S+ +D
Sbjct: 269 RALQMNRSLLGNREISVSLADK 290
>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 = 74.1 bits (182), Expect = 3e-16
Identities = 14/57 (24%), Positives = 28/57 (49%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
++VGNL + + ++ + FS+ G I + DK + GF FV + ++ +
Sbjct: 40 CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAEN 96
>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 = 75.4 bits (186), Expect = 3e-16
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 3/93 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
IF+ NL ++ + L FS +G I++ V+ D SKG+GFV F+ +EA ++
Sbjct: 104 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIE 161
Query: 69 T-DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQ 100
+ +L ++ + S + R +
Sbjct: 162 KMNGMLLNDRKVFVGRFKSRKEREAELGARAKE 194
Score = 70.8 bits (174), Expect = 1e-14
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
++VG+L V+ L + FS G I++ V D T S G+ +V FQ ++ T
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 76
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 72.1 bits (177), Expect = 5e-16
Identities = 19/89 (21%), Positives = 40/89 (44%), Gaps = 3/89 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+++ P + +++K++ + GQ++N + + KG FV F + E+ K
Sbjct: 12 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFKGSIFVVFDSIESAKKFVE 70
Query: 69 TDSHVLEGSRLSIQPSDSHNRMAENMEDR 97
T + + L I D + A+ E+R
Sbjct: 71 TPGQKYKETDLLILFKD--DYFAKKNEER 97
>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 = 72.6 bits (178), Expect = 5e-16
Identities = 14/87 (16%), Positives = 34/87 (39%), Gaps = 1/87 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+++ LP+ + + FF + + ++ + G + G GFV F+N+
Sbjct: 26 FCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC 85
Query: 69 TDSHVLEGSRLSIQPSDSHNRMAENME 95
+ + + P + M E ++
Sbjct: 86 RHKQYMGNRFIQVHPI-TKKGMLEKID 111
>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 = 71.2 bits (175), Expect = 7e-16
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
I V N+P+TVS +E+ FF Y I + + G+ G V F++++
Sbjct: 16 TVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 75
Query: 69 T-DSHVLEGSRLSIQPSDS 86
+ + ++ + S
Sbjct: 76 DLNDRPIGSRKVKLSGPSS 94
>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 = 71.1 bits (175), Expect = 8e-16
Identities = 12/57 (21%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
NK+++GNL V+ ++L++ F + + L G+ FV + ++ +
Sbjct: 9 NKLYIGNLSPAVTADDLRQLFGDRKLPL------AGQVLLKSGYAFVDYPDQNWAIR 59
>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 = 70.7 bits (174), Expect = 1e-15
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 7/72 (9%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VF 67
+++FVGNLP ++ E++K F +YG+ + D KGFGF+ + + +
Sbjct: 16 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKV 69
Query: 68 STDSHVLEGSRL 79
D+ L G +L
Sbjct: 70 ELDNMPLRGKQL 81
>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics,
RRM domain, riken structural genomics/proteomics
initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 70.5 bits (173), Expect = 1e-15
Identities = 18/74 (24%), Positives = 30/74 (40%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ + LP+ S E+ +FFS + N + G S G FV F ++E +K
Sbjct: 18 VRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKH 77
Query: 71 SHVLEGSRLSIQPS 84
+ + I S
Sbjct: 78 KERIGHRYIEIFKS 91
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 70.8 bits (174), Expect = 2e-15
Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 9/77 (11%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVDKVF 67
++FV P V +EL + F +G + ++ GF FV F+ E A +
Sbjct: 32 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIE 83
Query: 68 STDSHVLEGSRLSIQPS 84
L + S
Sbjct: 84 EVHGKSFANQPLEVVYS 100
>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 = 69.8 bits (171), Expect = 2e-15
Identities = 14/82 (17%), Positives = 35/82 (42%), Gaps = 5/82 (6%)
Query: 5 IRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVM-----FDKNTGLSKGFGFVTFQN 59
+ +++VGN+P+ ++ + FF+ ++ + K F F+ F++
Sbjct: 3 LGSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRS 62
Query: 60 KEAVDKVFSTDSHVLEGSRLSI 81
+ + + D + +G L I
Sbjct: 63 VDETTQAMAFDGIIFQGQSLKI 84
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 69.9 bits (172), Expect = 2e-15
Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 10/97 (10%)
Query: 3 NSIRQLNKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++I +++F+GNLP VS +L + FS YG IM ++ FGF+ F N +
Sbjct: 5 HNIPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--------NAFGFIQFDNPQ 56
Query: 62 -AVDKVFSTDSHVLEGSRLSIQPSDSHNRMAENMEDR 97
D + + G +L ++ S S+ R + D
Sbjct: 57 SVRDAIECESQEMNFGKKLILEVSSSNARPQFDHGDH 93
>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 = 70.0 bits (172), Expect = 2e-15
Identities = 15/69 (21%), Positives = 34/69 (49%), Gaps = 1/69 (1%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQ-IMNASVMFDKNTGLSKGFGFVTFQNK 60
S S +++G+L + N + + F+ G+ +M+ ++ ++ TG+ G+ FV F +
Sbjct: 3 SGSSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADL 62
Query: 61 EAVDKVFST 69
+K
Sbjct: 63 ATAEKCLHK 71
>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch,
ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB:
3ixe_A 2kbx_A
Length = 179
Score = 72.1 bits (178), Expect = 2e-15
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N N + A G D+ V++L + +IN ++E+G LH+AC G +V +
Sbjct: 66 NVMNRGDDTPLHLAASHGHRDI-VQKLLQ-YKADINAVNEHGNVPLHYACFWGQDQVAED 123
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ GA V++ + G+ +D AKA L E G
Sbjct: 124 LVAN-GALVSICNKYGEMPVDKAKAPLRELLRERAEKMG 161
Score = 69.8 bits (172), Expect = 1e-14
Identities = 28/89 (31%), Positives = 46/89 (51%), Gaps = 2/89 (2%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
I+ +EG V+ + ++NQ D++G + LHWAC G VV+ LI + GA +N
Sbjct: 9 IFTQCREGNAVA-VRLWLDNTENDLNQGDDHGFSPLHWACREGRSAVVEMLIMR-GARIN 66
Query: 318 VTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
V + D L A + H D+++ L+
Sbjct: 67 VMNRGDDTPLHLAASHGHRDIVQKLLQYK 95
Score = 66.7 bits (164), Expect = 2e-13
Identities = 26/99 (26%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N+ + + + +EG+ + V+ L + IN ++ LH A GH +VQ
Sbjct: 33 NQGDDHGFSPLHWACREGRSAV-VEMLIM-RGARINVMNRGDDTPLHLAASHGHRDIVQK 90
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ AD+N + G+ L YA + E LV +G
Sbjct: 91 LLQY-KADINAVNEHGNVPLHYACFWGQDQVAEDLVANG 128
Score = 57.1 bits (139), Expect = 5e-10
Identities = 12/61 (19%), Positives = 25/61 (40%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNS 345
++ + C G+ V+ ++ D+N D G L +A + ++E L+
Sbjct: 2 SPEFMDDIFTQCREGNAVAVRLWLDNTENDLNQGDDHGFSPLHWACREGRSAVVEMLIMR 61
Query: 346 G 346
G
Sbjct: 62 G 62
Score = 50.1 bits (121), Expect = 1e-07
Identities = 8/73 (10%), Positives = 22/73 (30%), Gaps = 9/73 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N N + G+ + + L ++ ++ G + A + +
Sbjct: 99 NAVNEHGNVPLHYACFWGQDQV-AEDLVA-NGALVSICNKYGEMPVDKAKAPLRELLRER 156
Query: 308 LIEKCGADVNVTD 320
+ G ++N
Sbjct: 157 AEKM-GQNLNRIP 168
>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein;
2.70A {Homo sapiens} SCOP: d.211.1.1
Length = 437
Score = 75.2 bits (186), Expect = 3e-15
Identities = 27/99 (27%), Positives = 42/99 (42%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N N A+EG + + L K ++ G LH A G++K+V+
Sbjct: 272 NLGNKSGLTPLHLVAQEGHVPV-ADVLIK-HGVMVDATTRMGYTPLHVASHYGNIKLVKF 329
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ ADVN G L A HTD++ L+ +G
Sbjct: 330 LLQH-QADVNAKTKLGYSPLHQAAQQGHTDIVTLLLKNG 367
Score = 71.8 bits (177), Expect = 5e-14
Identities = 23/100 (23%), Positives = 41/100 (41%), Gaps = 9/100 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + + G + + VK L + ++N + G + LH A +GH +V
Sbjct: 305 DATTRMGYTPLHVASHYGNIKL-VKFLLQ-HQADVNAKTKLGYSPLHQAAQQGHTDIVTL 362
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
L++ GA N SDG L AK + + + + L
Sbjct: 363 LLKN-GASPNEVSSDGTTPLAIAKRLGYISVTDVLKVVTD 401
Score = 70.6 bits (174), Expect = 1e-13
Identities = 20/99 (20%), Positives = 40/99 (40%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + AK+ ++++ + L + + N G+ LH A GH ++V
Sbjct: 206 HSPAWNGYTPLHIAAKQNQVEV-ARSLLQ-YGGSANAESVQGVTPLHLAAQEGHAEMVAL 263
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ K A+ N+ + G L H + + L+ G
Sbjct: 264 LLSK-QANGNLGNKSGLTPLHLVAQEGHVPVADVLIKHG 301
Score = 70.2 bits (173), Expect = 1e-13
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N +++ A+EG +M V L K N N +++GL LH GH+ V
Sbjct: 239 NAESVQGVTPLHLAAQEGHAEM-VALLLS-KQANGNLGNKSGLTPLHLVAQEGHVPVADV 296
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LI+ G V+ T G L A + L+++L+
Sbjct: 297 LIKH-GVMVDATTRMGYTPLHVASHYGNIKLVKFLLQHQ 334
Score = 70.2 bits (173), Expect = 1e-13
Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ AK GK+ + + L + +D + N +NGL LH A +L +V+
Sbjct: 140 ACMTKKGFTPLHVAAKYGKVRV-AELLLE-RDAHPNAAGKNGLTPLHVAVHHNNLDIVKL 197
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ + G + +G L A ++ L+ G
Sbjct: 198 LLPR-GGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYG 235
Score = 67.5 bits (166), Expect = 1e-12
Identities = 22/99 (22%), Positives = 39/99 (39%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N N+ A+ G ++ K L + +N ++ LH A GH +V+
Sbjct: 41 NVSNVKVETPLHMAARAGHTEV-AKYLLQ-NKAKVNAKAKDDQTPLHCAARIGHTNMVKL 98
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+E A+ N+ + G L A H + + L+
Sbjct: 99 LLEN-NANPNLATTAGHTPLHIAAREGHVETVLALLEKE 136
Score = 67.1 bits (165), Expect = 1e-12
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ E+GL LH A GHL +V++L+++ GA NV++ + L A HT++ +
Sbjct: 6 SGGGGGESGLTPLHVASFMGHLPIVKNLLQR-GASPNVSNVKVETPLHMAARAGHTEVAK 64
Query: 341 YLVNSG 346
YL+ +
Sbjct: 65 YLLQNK 70
Score = 66.4 bits (163), Expect = 3e-12
Identities = 26/99 (26%), Positives = 36/99 (36%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K + A+ G +M VK L + + N N G LH A GH++ V
Sbjct: 74 NAKAKDDQTPLHCAARIGHTNM-VKLLLE-NNANPNLATTAGHTPLHIAAREGHVETVLA 131
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+EK A G L A + E L+
Sbjct: 132 LLEK-EASQACMTKKGFTPLHVAAKYGKVRVAELLLERD 169
Score = 52.5 bits (127), Expect = 9e-08
Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 10/86 (11%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K + A++G D+ V L K + N++ +G L A G++ V
Sbjct: 338 NAKTKLGYSPLHQAAQQGHTDI-VTLLLK-NGASPNEVSSDGTTPLAIAKRLGYISVTDV 395
Query: 308 LIEKC--GADVNVTDSDGDYGLDYAK 331
L + V V+D +
Sbjct: 396 LKVVTDETSFVLVSDKHRMSFPETVD 421
Score = 32.1 bits (74), Expect = 0.24
Identities = 7/34 (20%), Positives = 12/34 (35%)
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
G G L A + H +++ L+ G
Sbjct: 4 GISGGGGGESGLTPLHVASFMGHLPIVKNLLQRG 37
>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 = 69.6 bits (171), Expect = 3e-15
Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 1/77 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VF 67
I V N+P+TVS +E+ FF Y I + + G+ G V F++++ V
Sbjct: 16 TIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 75
Query: 68 STDSHVLEGSRLSIQPS 84
+ + ++ +
Sbjct: 76 DLNDRPIGSRKVKLVLG 92
>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA
recognition motif, G-tract, G-quadruplex, alternative
splicing, RNA binding protein; NMR {Homo sapiens} PDB:
2kg0_A
Length = 126
Score = 70.3 bits (172), Expect = 3e-15
Identities = 16/84 (19%), Positives = 30/84 (35%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
S + + LP+ + E+ +FFS + N + G G FV F ++
Sbjct: 35 NSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQ 94
Query: 61 EAVDKVFSTDSHVLEGSRLSIQPS 84
E +K + + + S
Sbjct: 95 ELAEKALGKHKERIGHRYIEVFKS 118
>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC,
rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens}
PDB: 3uxg_A
Length = 172
Score = 71.7 bits (177), Expect = 4e-15
Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + G D+ V L + +D +IN D NG L +A H+K V+
Sbjct: 63 HILAKERESALSLASTGGYTDI-VGLLLE-RDVDINIYDWNGGTPLLYAVRGNHVKCVEA 120
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ + GAD+ G +D A A+ + + + + N
Sbjct: 121 LLAR-GADLTTEADSGYTPMDLAVALGYRKVQQVIENHI 158
Score = 69.0 bits (170), Expect = 3e-14
Identities = 25/85 (29%), Positives = 44/85 (51%), Gaps = 2/85 (2%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A +G+LD +K+ + D +N+ DE G L WA G ++ V+ L+E GAD ++
Sbjct: 10 AAQGELDQ-LKEHLRKGDNLVNKPDERGFTPLIWASAFGEIETVRFLLEW-GADPHILAK 67
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
+ + L A +TD++ L+
Sbjct: 68 ERESALSLASTGGYTDIVGLLLERD 92
Score = 61.3 bits (150), Expect = 1e-11
Identities = 9/76 (11%), Positives = 24/76 (31%), Gaps = 9/76 (11%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + + + V+ L + ++ ++G + A G+ KV Q
Sbjct: 96 NIYDWNGGTPLLYAVRGNHVKC-VEALLA-RGADLTTEADSGYTPMDLAVALGYRKVQQV 153
Query: 308 LIEKCGADVNVTDSDG 323
+ + ++
Sbjct: 154 IENH-ILKLFQSNLVP 168
Score = 50.1 bits (121), Expect = 1e-07
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 293 LHWACDRGHLKVVQHLIEKCGAD-VNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+H +G L ++ + K G + VN D G L +A A + + +L+ G
Sbjct: 6 IHQLAAQGELDQLKEHLRK-GDNLVNKPDERGFTPLIWASAFGEIETVRFLLEWG 59
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription
termination, RNA processi recognition, RRM; HET: CAF;
1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A
Length = 97
Score = 69.3 bits (170), Expect = 4e-15
Identities = 25/91 (27%), Positives = 43/91 (47%), Gaps = 10/91 (10%)
Query: 1 MSNSIRQLNKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
+ +++F+GNLP VS +L + FS YG IM ++ FGF+ F N
Sbjct: 15 VPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--------NAFGFIQFDN 66
Query: 60 KEAVDK-VFSTDSHVLEGSRLSIQPSDSHNR 89
++V + + G +L ++ S S+ R
Sbjct: 67 PQSVRDAIEXESQEMNFGKKLILEVSSSNAR 97
>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium,
SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo
sapiens} PDB: 3v2x_A 3v2o_A 3so8_A
Length = 167
Score = 71.3 bits (176), Expect = 4e-15
Identities = 23/99 (23%), Positives = 40/99 (40%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+G D+ VK L ++N+ D NG L +A H+K V+
Sbjct: 63 QLLGKGRESALSLACSKGYTDI-VKMLLD-CGVDVNEYDWNGGTPLLYAVHGNHVKCVKM 120
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+E GAD + G +D A A+ + + + + +
Sbjct: 121 LLES-GADPTIETDSGYNSMDLAVALGYRSVQQVIESHL 158
Score = 69.3 bits (171), Expect = 2e-14
Identities = 23/85 (27%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A +G++ + + ++ IN DE G L WA G + VV+ L++ GAD +
Sbjct: 11 AAQGEMLY-LATRIE-QENVINHTDEEGFTPLMWAAAHGQIAVVEFLLQN-GADPQLLGK 67
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
+ L A + +TD+++ L++ G
Sbjct: 68 GRESALSLACSKGYTDIVKMLLDCG 92
Score = 55.1 bits (134), Expect = 2e-09
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+H +G + + IE+ +N TD +G L +A A ++E+L+ +G
Sbjct: 7 VHQLAAQGEMLYLATRIEQ-ENVINHTDEEGFTPLMWAAAHGQIAVVEFLLQNG 59
>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix,
ankyrin repeat, gene regulation/signalling protein/DNA
complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1
Length = 373
Score = 74.6 bits (184), Expect = 4e-15
Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 8/108 (7%)
Query: 245 INDESQLDDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACD 298
++ + + + A+ + + VK L K N ++ DE+G + A
Sbjct: 264 VDYDGAARKDSEKYKGRTALHYAAQVSNMPI-VKYLVGEKGSNKDKQDEDGKTPIMLAAQ 322
Query: 299 RGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
G ++VV +LI++ GA V D+ A+A H ++++
Sbjct: 323 EGRIEVVMYLIQQ-GASVEAVDATDHTARQLAQANNHHNIVDIFDRCR 369
Score = 60.4 bits (147), Expect = 2e-10
Identities = 17/104 (16%), Positives = 34/104 (32%), Gaps = 13/104 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + E + + V L K + +++ + LH A ++ +
Sbjct: 160 NAMDCDENTPLMLAVLARRRRL-VAYLMK-AGADPTIYNKSERSALHQAAANRDFGMMVY 217
Query: 308 LIEKC--GADVNVTDSDGDYGLDYAKAIEHTDLI---EYLVNSG 346
++ D+ D +G L E D + + LV G
Sbjct: 218 MLNSTKLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKG 261
Score = 59.6 bits (145), Expect = 3e-10
Identities = 23/107 (21%), Positives = 35/107 (32%), Gaps = 15/107 (14%)
Query: 252 DDNEKNIYEW-----AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
E G + + +T+ + NI + LHW + +
Sbjct: 86 IPTEPEPESPIKLHTEAAGSYAI-TEPITR-ESVNIID-PRHNRTVLHWIASNSSAEKSE 142
Query: 307 HLIEK-------CGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LI GADVN D D + L A L+ YL+ +G
Sbjct: 143 DLIVHEAKECIAAGADVNAMDCDENTPLMLAVLARRRRLVAYLMKAG 189
Score = 59.2 bits (144), Expect = 5e-10
Identities = 19/108 (17%), Positives = 38/108 (35%), Gaps = 15/108 (13%)
Query: 254 NEKNIYEW------AKEGKLDML--VKQL-------TKLKDFNINQLDENGLNCLHWACD 298
E + A D + K L + G LH+A
Sbjct: 229 EELDRNGMTALMIVAHNEGRDQVASAKLLVEKGAKVDYDGAARKDSEKYKGRTALHYAAQ 288
Query: 299 RGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
++ +V++L+ + G++ + D DG + A +++ YL+ G
Sbjct: 289 VSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVVMYLIQQG 336
Score = 58.0 bits (141), Expect = 1e-09
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N +D + L A ++V +L++ GAD + + L A A ++
Sbjct: 158 DVNAMDCDENTPLMLAVLARRRRLVAYLMKA-GADPTIYNKSERSALHQAAANRDFGMMV 216
Query: 341 YLVN 344
Y++N
Sbjct: 217 YMLN 220
Score = 53.8 bits (130), Expect = 3e-08
Identities = 7/69 (10%), Positives = 14/69 (20%), Gaps = 2/69 (2%)
Query: 278 KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTD 337
N+L L G+ + + + L A
Sbjct: 50 IKRQRNELQHYSLYPNPQGYGNGNDFLGDFNHTN-LQIPTEPEPESPIKLHTE-AAGSYA 107
Query: 338 LIEYLVNSG 346
+ E +
Sbjct: 108 ITEPITRES 116
Score = 45.3 bits (108), Expect = 1e-05
Identities = 14/113 (12%), Positives = 43/113 (38%), Gaps = 16/113 (14%)
Query: 217 EINWDESQESGSKENEGQT-------KGWVNVSSMINDESQLDDNEKNIYEW------AK 263
++++D + S++ +G+T + + + E + ++++ A+
Sbjct: 263 KVDYDGAARKDSEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQ 322
Query: 264 EGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADV 316
EG++++ V L + + ++ +D A H +V +
Sbjct: 323 EGRIEV-VMYLIQ-QGASVEAVDATDHTARQLAQANNHHNIVDIFDRC-RPER 372
>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP:
k.37.1.1
Length = 126
Score = 69.7 bits (172), Expect = 6e-15
Identities = 34/99 (34%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K+ A+ G L++ VK L + ++N D+NG LH A GHL+VV+
Sbjct: 29 NAKDKNGRTPLHLAARNGHLEV-VKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKL 86
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+E GADVN D +G L A H ++++ L+ +G
Sbjct: 87 LLEA-GADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAG 124
Score = 63.9 bits (157), Expect = 7e-13
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N D+NG LH A GHL+VV+ L+E GADVN D +G L A H ++++
Sbjct: 27 DVNAKDKNGRTPLHLAARNGHLEVVKLLLEA-GADVNAKDKNGRTPLHLAARNGHLEVVK 85
Query: 341 YLVNSG 346
L+ +G
Sbjct: 86 LLLEAG 91
Score = 56.2 bits (137), Expect = 3e-10
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
NG LH A GHL+VV+ L+E GADVN D +G L A H ++++ L+ +G
Sbjct: 1 NGRTPLHLAARNGHLEVVKLLLEA-GADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAG 58
Score = 47.7 bits (115), Expect = 3e-07
Identities = 24/67 (35%), Positives = 35/67 (52%), Gaps = 9/67 (13%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K+ A+ G L++ VK L + ++N D+NG LH A GHL+VV+
Sbjct: 62 NAKDKNGRTPLHLAARNGHLEV-VKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKL 119
Query: 308 LIEKCGA 314
L+E GA
Sbjct: 120 LLEA-GA 125
>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 = 70.3 bits (172), Expect = 6e-15
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVDKVFS 68
K++VGNL + EL++ F YG + + V + GF FV F++ A D V
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRE 129
Query: 69 TDSHVLEGSRLSIQPSDSHNR 89
D L G R+ ++ S+ R
Sbjct: 130 LDGRTLCGCRVRVELSNGEKR 150
>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM
domain, RNA- binding, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 104
Score = 68.4 bits (167), Expect = 1e-14
Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 3/76 (3%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ V LP V L +F + V+ + G G +TF+ ++V +
Sbjct: 9 VAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG---CGGVLTFREPADAERVLA 65
Query: 69 TDSHVLEGSRLSIQPS 84
H L G++LS++P+
Sbjct: 66 QADHELHGAQLSLRPA 81
>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping,
inhibition, prote binding, actin capping, actin-binding,
cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A
2kxp_C 2myo_A
Length = 123
Score = 68.6 bits (169), Expect = 1e-14
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
K G LD VK K ++N+ E G LH+A D G L++++ L+ K GAD+N D
Sbjct: 15 LKNGDLDE-VKDYVA-KGEDVNRTLEGGRKPLHYAADCGQLEILEFLLLK-GADINAPDK 71
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
L A H ++ L++ G
Sbjct: 72 HHITPLLSAVYEGHVSCVKLLLSKG 96
Score = 65.9 bits (162), Expect = 1e-13
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 9/93 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N A G+L++ ++ L K +IN D++ + L A GH+ V+
Sbjct: 34 NRTLEGGRKPLHYAADCGQLEI-LEFLLL-KGADINAPDKHHITPLLSAVYEGHVSCVKL 91
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
L+ K GAD V DG + L++
Sbjct: 92 LLSK-GADKTVKGPDGLTAFEATDNQAIKALLQ 123
Score = 57.8 bits (141), Expect = 9e-11
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 285 LDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
L WA G L V+ + K G DVN T G L YA +++E+L+
Sbjct: 3 LGSMCDKEFMWALKNGDLDEVKDYVAK-GEDVNRTLEGGRKPLHYAADCGQLEILEFLLL 61
Query: 345 SG 346
G
Sbjct: 62 KG 63
>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat,
helix, extended loop, four repeat, PR ANK repeat,
disease mutation, metal-binding; 2.00A {Homo sapiens}
SCOP: k.37.1.1
Length = 137
Score = 68.2 bits (168), Expect = 2e-14
Identities = 23/100 (23%), Positives = 37/100 (37%), Gaps = 9/100 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K+ W G L + V+ L + +N + LH A GH+ +V+
Sbjct: 37 NVKDHAGWTPLHEACNHGHLKV-VELLLQ-HKALVNTTGYQNDSPLHDAAKNGHVDIVKL 94
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
L+ GA N + G +DY L+ + S
Sbjct: 95 LLSY-GASRNAVNIFGLRPVDYTDDESMKSLLLLPEKNES 133
Score = 65.1 bits (160), Expect = 3e-13
Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ N D G LH AC+ GHLKVV+ L++ A VN T D L A H D+++
Sbjct: 35 DPNVKDHAGWTPLHEACNHGHLKVVELLLQH-KALVNTTGYQNDSPLHDAAKNGHVDIVK 93
Query: 341 YLVNSG 346
L++ G
Sbjct: 94 LLLSYG 99
Score = 61.3 bits (150), Expect = 6e-12
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ + G LH A +G + V++L++ G+D NV D G L A H ++E
Sbjct: 3 DPFT-NHRGETLLHIASIKGDIPSVEYLLQN-GSDPNVKDHAGWTPLHEACNHGHLKVVE 60
Query: 341 YLVNSG 346
L+
Sbjct: 61 LLLQHK 66
>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A;
1.80A {Homo sapiens} SCOP: d.211.1.1
Length = 285
Score = 71.3 bits (176), Expect = 2e-14
Identities = 26/102 (25%), Positives = 41/102 (40%), Gaps = 10/102 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKL---KDFNINQLDENGLNCLHWACDRGHLKV 304
N + V+ +T L ++N E G L A ++ HL +
Sbjct: 176 NACDNMGRNALIHALLSSDDSD-VEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGL 234
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
VQ L+E+ ++N TDSDG L A ++ + E L G
Sbjct: 235 VQRLLEQEHIEINDTDSDGKTALLLAVELKLKKIAELLCKRG 276
Score = 63.3 bits (155), Expect = 1e-11
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ +NG A G +K+++ + K GADVN D G A ++
Sbjct: 64 DPVLRKKNGATPFLLAAIAGSVKLLKLFLSK-GADVNECDFYGFTAFMEAAVYGKVKALK 122
Query: 341 YLVNSG 346
+L G
Sbjct: 123 FLYKRG 128
Score = 60.9 bits (149), Expect = 8e-11
Identities = 28/113 (24%), Positives = 50/113 (44%), Gaps = 22/113 (19%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNC----------LHWAC 297
NE + Y + A GK+ +K L K + N+N + + L A
Sbjct: 99 NECDFYGFTAFMEAAVYGKVKA-LKFLYK-RGANVNLRRKTKEDQERLRKGGATALMDAA 156
Query: 298 DRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTD----LIEYLVNSG 346
++GH++V++ L+++ GADVN D+ G L +A + L++ G
Sbjct: 157 EKGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHG 209
Score = 57.5 bits (140), Expect = 1e-09
Identities = 20/86 (23%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLD-ENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
+ +D+ V+QL + N+N + E G LH A +V+ L+ GAD +
Sbjct: 13 VQNEDVDL-VQQLLE-GGANVNFQEEEGGWTPLHNAVQMSREDIVELLLRH-GADPVLRK 69
Query: 321 SDGDYGLDYAKAIEHTDLIEYLVNSG 346
+G A L++ ++ G
Sbjct: 70 KNGATPFLLAAIAGSVKLLKLFLSKG 95
Score = 53.2 bits (129), Expect = 3e-08
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDY-GLDYAKAIEHTDLIEYLVN 344
+ L A + +VQ L+E GA+VN + +G + L A + D++E L+
Sbjct: 2 AVEDNHLLIKAVQNEDVDLVQQLLEG-GANVNFQEEEGGWTPLHNAVQMSREDIVELLLR 60
Query: 345 SG 346
G
Sbjct: 61 HG 62
>3hra_A Ankyrin repeat family protein; structural protein; 1.69A
{Enterococcus faecalis}
Length = 201
Score = 69.8 bits (172), Expect = 2e-14
Identities = 21/104 (20%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N +N +G+ ++ + + K ++N+ + G N L A ++GH+ V+
Sbjct: 66 NLQNSISDSPYLYAGAQGRTEI-LAYMLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKL 124
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIE-----HTDLIEYLVNSG 346
L+E D++ + G L A + + D+++ L+ +G
Sbjct: 125 LLEDGREDIDFQNDFGYTALIEAVGLREGNQLYQDIVKLLMENG 168
Score = 65.2 bits (160), Expect = 1e-12
Identities = 27/103 (26%), Positives = 50/103 (48%), Gaps = 13/103 (12%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWAC-----DRG 300
D N+ N Y A++G +D VK L + +I+ ++ G L A ++
Sbjct: 98 DLNKHNRYGGNALIPAAEKGHIDN-VKLLLEDGREDIDFQNDFGYTALIEAVGLREGNQL 156
Query: 301 HLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLV 343
+ +V+ L+E GAD ++ D+ G +DYA +T++ + L
Sbjct: 157 YQDIVKLLMEN-GADQSIKDNSGRTAMDYANQKGYTEISKILA 198
Score = 64.0 bits (157), Expect = 2e-12
Identities = 20/95 (21%), Positives = 44/95 (46%), Gaps = 2/95 (2%)
Query: 252 DDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK 311
+ E A + + + L + ++++D G L+ A +++ + LI++
Sbjct: 3 TYEVGALLEAANQRDTKKVKEILQD-TTYQVDEVDTEGNTPLNIAVHNNDIEIAKALIDR 61
Query: 312 CGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
GAD+N+ +S D YA A T+++ Y++
Sbjct: 62 -GADINLQNSISDSPYLYAGAQGRTEILAYMLKHA 95
Score = 62.5 bits (153), Expect = 9e-12
Identities = 16/100 (16%), Positives = 39/100 (39%), Gaps = 8/100 (8%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+E + +++ K L + +IN + + +A +G +++ +
Sbjct: 33 DEVDTEGNTPLNIAVHNNDIEI-AKALID-RGADINLQNSISDSPYLYAGAQGRTEILAY 90
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
+++ D+N + G L A H D ++ L+ G
Sbjct: 91 MLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDGR 130
Score = 39.7 bits (94), Expect = 5e-04
Identities = 10/68 (14%), Positives = 29/68 (42%), Gaps = 9/68 (13%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKL---KDFNINQLDENGLNCLHWACDRGHL 302
D + +N + + + + L + + KL + + D +G + +A +G+
Sbjct: 132 DIDFQNDFGYTALIEAVGLREGNQLYQDIVKLLMENGADQSIKDNSGRTAMDYANQKGYT 191
Query: 303 KVVQHLIE 310
++ + L +
Sbjct: 192 EISKILAQ 199
>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin
repeat, signaling protein; NMR {Mus musculus} SCOP:
i.11.1.1
Length = 136
Score = 68.2 bits (168), Expect = 2e-14
Identities = 23/99 (23%), Positives = 35/99 (35%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW-----AKEGKLDMLVKQLTKLKDFNINQLDENGLNC-LHWACDRGHLKVVQH 307
N N + G + + L N D L +H A G L +
Sbjct: 39 NALNRFGRRPIQVMMMGSAQV-AELLLL-HGAEPNCADPATLTRPVHDAAREGFLDTLVV 96
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L GA ++V D+ G +D A+ H D+ YL +
Sbjct: 97 LHRA-GARLDVCDAWGRLPVDLAEEQGHRDIARYLHAAT 134
Score = 64.8 bits (159), Expect = 4e-13
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 2/66 (3%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
I+ L + L A RG ++ V+ L+E GAD N + G + + + E
Sbjct: 4 GIHMLGGSSDAGLATAAARGQVETVRQLLEA-GADPNALNRFGRRPIQVM-MMGSAQVAE 61
Query: 341 YLVNSG 346
L+ G
Sbjct: 62 LLLLHG 67
Score = 49.4 bits (119), Expect = 9e-08
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 10/71 (14%)
Query: 252 DDNEKNIYEW-------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV 304
+ N + A+EG LD + L + ++ D G + A ++GH +
Sbjct: 69 EPNCADPATLTRPVHDAAREGFLDT-LVVLHR-AGARLDVCDAWGRLPVDLAEEQGHRDI 126
Query: 305 VQHLIEKCGAD 315
++L D
Sbjct: 127 ARYLHAA-TGD 136
Score = 32.0 bits (74), Expect = 0.090
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+++ D GL A A + + L+ +G
Sbjct: 2 SPGIHMLGGSSDAGLATAAARGQVETVRQLLEAG 35
>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
Length = 110
Score = 67.4 bits (165), Expect = 3e-14
Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 10/83 (12%)
Query: 9 NKIFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-V 66
+++F+GNL V ++++ FS+YG++ SV KG+ FV + N+ V
Sbjct: 28 SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVH--------KGYAFVQYSNERHARAAV 79
Query: 67 FSTDSHVLEGSRLSIQPSDSHNR 89
+ VL G L I +
Sbjct: 80 LGENGRVLAGQTLDINMAGEPKP 102
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 66.9 bits (164), Expect = 3e-14
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 11 IFVGNLPWTVSHNELKKFFSE-YGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
+FVG+L V L +FF + Y V+ D+ TG+SKG+GFV F ++ +
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKR 66
>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor,
cytoplasm, phosphorylation, P53 binding protein, ANK
repeat, SH3 domain; 2.10A {Homo sapiens}
Length = 229
Score = 70.0 bits (172), Expect = 3e-14
Identities = 28/104 (26%), Positives = 43/104 (41%), Gaps = 12/104 (11%)
Query: 252 DDNEKNIYEW---------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHL 302
+ A G+L++ V+Q K + + +Q +E G+ LH A +
Sbjct: 10 SPRKARRARLNPLVLLLDAALTGELEV-VQQAVK-EMNDPSQPNEEGITALHNAICGANY 67
Query: 303 KVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+V LI GA+VN DS G L A + T + LV G
Sbjct: 68 SIVDFLITA-GANVNSPDSHGWTPLHCAASCNDTVICMALVQHG 110
Score = 51.9 bits (125), Expect = 6e-08
Identities = 13/102 (12%), Positives = 27/102 (26%), Gaps = 13/102 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDEN-GLNCLHWA--CDRGHLKV 304
N + + W A + L + I + G G+
Sbjct: 81 NSPDSHGWTPLHCAASCNDTVI-CMALVQ-HGAAIFATTLSDGATAFEKCDPYREGYADC 138
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+L + + + +S Y L + E D + +
Sbjct: 139 ATYLADV-EQSMGLMNSGAVYALWDY-SAEFGDELSFREGES 178
Score = 32.2 bits (74), Expect = 0.16
Identities = 7/60 (11%), Positives = 15/60 (25%), Gaps = 9/60 (15%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
N + E ++ + + + + + D WA G V
Sbjct: 148 SMGLMNSGAVYALWDYSAEFGDELSFR---EGESVTVLRRDGPEETDWWWAALHGQEGYV 204
Score = 31.8 bits (73), Expect = 0.22
Identities = 4/45 (8%), Positives = 12/45 (26%), Gaps = 4/45 (8%)
Query: 305 VQHLIEKCGADVNVTDSDGDYG---LDYAKAIEHTDLIEYLVNSG 346
++ ++ K L A ++++ V
Sbjct: 1 MRSVLRK-AGSPRKARRARLNPLVLLLDAALTGELEVVQQAVKEM 44
>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural
genomics of pathogenic protozoa consortium, SGPP, ANK
repeat; 2.90A {Leishmania major}
Length = 364
Score = 71.4 bits (176), Expect = 5e-14
Identities = 16/102 (15%), Positives = 35/102 (34%), Gaps = 10/102 (9%)
Query: 254 NEKNIYEW------AKEGKLDM---LVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV 304
K+ + + + ++ + ++ ++ G + LHWA V
Sbjct: 167 TAKDKADETPLMRAMEFRNREALDLMMDTVPSKSSLRLDYANKQGNSHLHWAILINWEDV 226
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+E G DVN+ D++ L + L + L+
Sbjct: 227 AMRFVEM-GIDVNMEDNEHTVPLYLSVRAAMVLLTKELLQKT 267
Score = 69.1 bits (170), Expect = 2e-13
Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 1/74 (1%)
Query: 273 QLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKA 332
+T N + D+ + +H A +G V+ LIE G + + G L A
Sbjct: 4 SMTDFPKLNRIKSDDENMEKIHVAARKGQTDEVRRLIET-GVSPTIQNRFGCTALHLACK 62
Query: 333 IEHTDLIEYLVNSG 346
D +YL + G
Sbjct: 63 FGCVDTAKYLASVG 76
Score = 66.0 bits (162), Expect = 3e-12
Identities = 15/111 (13%), Positives = 32/111 (28%), Gaps = 20/111 (18%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQL-----------TKLKD-FNINQLDENGLNCLHW 295
N ++ + + + K+L + + L+ +
Sbjct: 238 NMEDNEHTVPLYLSVRAAMVLL-TKELLQKTDVFLIQACPYHNGTTVLPDRVVWLDFVPA 296
Query: 296 ACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
A D +V+Q L EK +V + + G G K + +
Sbjct: 297 AADPSKQEVLQLLQEK-LDEVVRSLNTGAGGAVKRKKKAAPAVKRMKLAPS 346
Score = 58.3 bits (142), Expect = 9e-10
Identities = 16/109 (14%), Positives = 38/109 (34%), Gaps = 14/109 (12%)
Query: 250 QLDDNEKNIYEW------AKEGK--LDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGH 301
++ + K+ G L+M +K L + + D+ L A + +
Sbjct: 128 EIGSHVKHCKGQTALHWCVGLGPEYLEM-IKILVQ-LGASPTAKDKADETPLMRAMEFRN 185
Query: 302 LKVVQHLIEKC----GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ + +++ ++ + G+ L +A I D+ V G
Sbjct: 186 REALDLMMDTVPSKSSLRLDYANKQGNSHLHWAILINWEDVAMRFVEMG 234
Score = 57.2 bits (139), Expect = 2e-09
Identities = 11/102 (10%), Positives = 25/102 (24%), Gaps = 9/102 (8%)
Query: 236 KGWVNVSSMINDESQLDDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENG 289
K V + + + A K ++ ++ L + K + + G
Sbjct: 266 KTDVFLIQACPYHNGTTVLPDRVVWLDFVPAAADPSKQEV-LQLLQE-KLDEVVRSLNTG 323
Query: 290 LNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAK 331
+ V + + A V +K
Sbjct: 324 AGGAVKRKKKAAPAVKRMKLAP-SAPVRTRSRSRARSSAVSK 364
Score = 49.5 bits (119), Expect = 7e-07
Identities = 13/97 (13%), Positives = 26/97 (26%), Gaps = 17/97 (17%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+N + K G +D K L + +G +H A +V
Sbjct: 47 TIQNRFGCTALHLACKFGCVDT-AKYLAS-VGEVHS--LWHGQKPIHLAVMANKTDLVVA 102
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
L+E + + ++ E +
Sbjct: 103 LVEG-AKERGQMP------ESLLNECDEREVNEIGSH 132
>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats,
A-helical domain, structural genomics, NPPSFA; 2.20A
{Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A
1ixv_A 1wg0_A
Length = 228
Score = 69.0 bits (170), Expect = 7e-14
Identities = 23/97 (23%), Positives = 40/97 (41%), Gaps = 10/97 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
K+ + A G L + ++ L L +N D+ G L A GH
Sbjct: 134 RIKDKFNQIPLHRAASVGSLKL-IELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVL 192
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
L+EK GA+ ++ D+ G D A + + ++ +N
Sbjct: 193 LVEKYGAEYDLVDNKGAKAEDVAL---NEQVKKFFLN 226
Score = 66.3 bits (163), Expect = 7e-13
Identities = 27/86 (31%), Positives = 40/86 (46%), Gaps = 3/86 (3%)
Query: 262 AKEGKLDMLVKQL-TKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
G L++ VK L + ++N++ G+ CLH A + +V Q LIE GA V + D
Sbjct: 80 CSVGNLEV-VKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIEN-GASVRIKD 137
Query: 321 SDGDYGLDYAKAIEHTDLIEYLVNSG 346
L A ++ LIE L G
Sbjct: 138 KFNQIPLHRAASVGSLKLIELLCGLG 163
Score = 64.0 bits (157), Expect = 5e-12
Identities = 22/99 (22%), Positives = 36/99 (36%), Gaps = 8/99 (8%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
D N+ + ++ + L + ++ D+ LH A G LK++
Sbjct: 99 DLNKITNQGVTCLHLAVGKKWFEV-SQFLIE-NGASVRIKDKFNQIPLHRAASVGSLKLI 156
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
+ L + VN D G L +A A H D LV
Sbjct: 157 ELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVE 195
Score = 61.3 bits (150), Expect = 3e-11
Identities = 18/88 (20%), Positives = 38/88 (43%), Gaps = 5/88 (5%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
E + + + L K + Q D++G LHW+ ++ L+ K +VN+ D
Sbjct: 10 CMENEFFKVQELLHS-KPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSK-MENVNLDDY 67
Query: 322 DGDYG---LDYAKAIEHTDLIEYLVNSG 346
D G A ++ + ++++ L +
Sbjct: 68 PDDSGWTPFHIACSVGNLEVVKSLYDRP 95
Score = 51.7 bits (125), Expect = 6e-08
Identities = 12/54 (22%), Positives = 24/54 (44%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LH AC VQ L+ + + D DG L ++ + + ++ +L++
Sbjct: 6 LHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKM 59
>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat,
alternative splicing, ANK repeat, chromatin regulator,
nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP:
k.37.1.1 PDB: 3b95_A*
Length = 237
Score = 69.0 bits (170), Expect = 9e-14
Identities = 24/101 (23%), Positives = 40/101 (39%), Gaps = 9/101 (8%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
D N ++ W + +D+ VK L K +IN D CLHWA G + +
Sbjct: 103 DVNCQDDGGWTPMIWATEYKHVDL-VKLLLS-KGSDINIRDNEENICLHWAAFSGCVDIA 160
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ L+ D++ + GD L A D + ++
Sbjct: 161 EILLAA-KCDLHAVNIHGDSPLHIAARENRYDCVVLFLSRD 200
Score = 66.3 bits (163), Expect = 7e-13
Identities = 16/99 (16%), Positives = 37/99 (37%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N ++ E A G +D+ + L +++ ++ +G + LH A V
Sbjct: 138 NIRDNEENICLHWAAFSGCVDI-AEILLA-AKCDLHAVNIHGDSPLHIAARENRYDCVVL 195
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ + +DV + + +G+ L A + +
Sbjct: 196 FLSR-DSDVTLKNKEGETPLQCASLNSQVWSALQMSKAL 233
Score = 65.1 bits (160), Expect = 2e-12
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 8/99 (8%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + + A+ L+ VK L K ++ D G CLH A +GH +VVQ+
Sbjct: 38 DTCSEDQRTPLMEAAENNHLEA-VKYLIK-AGALVDPKDAEGSTCLHLAAKKGHYEVVQY 95
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ DVN D G + +A +H DL++ L++ G
Sbjct: 96 LLSNGQMDVNCQDDGGWTPMIWATEYKHVDLVKLLLSKG 134
Score = 63.2 bits (155), Expect = 1e-11
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N +N + LH A + GH+ + L++ GA+++ D L A H + ++
Sbjct: 3 NFKMEHQNKRSPLHAAAEAGHVDICHMLVQA-GANIDTCSEDQRTPLMEAAENNHLEAVK 61
Query: 341 YLVNSG 346
YL+ +G
Sbjct: 62 YLIKAG 67
Score = 47.8 bits (115), Expect = 1e-06
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 9/68 (13%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ NI+ A+E + D V +D ++ ++ G L A +
Sbjct: 171 HAVNIHGDSPLHIAARENRYDC-VVLFLS-RDSDVTLKNKEGETPLQCASLNSQVWSALQ 228
Query: 308 LIEKCGAD 315
+ + D
Sbjct: 229 MSKA-LQD 235
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 66.1 bits (161), Expect = 1e-13
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 3/77 (3%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNA--SVMFDKN-TGLSKGFGFVTFQNKEAVDKVF 67
+ + LP+T + E+ FF ++ I ++F G G FV F +E
Sbjct: 26 VRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNAL 85
Query: 68 STDSHVLEGSRLSIQPS 84
+L + + S
Sbjct: 86 RKHKDLLGKRYIELFRS 102
>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin
repeat Pro ribosome display, apoptosis; 1.80A {Synthetic
source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D*
3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B*
2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C*
Length = 169
Score = 67.0 bits (165), Expect = 1e-13
Identities = 30/96 (31%), Positives = 43/96 (44%), Gaps = 9/96 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + A G L++ V+ L K ++N D G LH A GHL++V+
Sbjct: 74 NAVDHAGMTPLRLAALFGHLEI-VEVLLK-NGADVNANDMEGHTPLHLAAMFGHLEIVEV 131
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLV 343
L++ GADVN D G D + + DL E L
Sbjct: 132 LLKN-GADVNAQDKFGKTAFDISIDNGNEDLAEILQ 166
Score = 62.8 bits (154), Expect = 5e-12
Identities = 29/85 (34%), Positives = 45/85 (52%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A+ G+ D V+ L ++N D +G LH A GHL++V+ L++ GADVN D
Sbjct: 22 ARAGRDDE-VRILMA-NGADVNAEDASGWTPLHLAAFNGHLEIVEVLLKN-GADVNAVDH 78
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
G L A H +++E L+ +G
Sbjct: 79 AGMTPLRLAALFGHLEIVEVLLKNG 103
Score = 54.3 bits (132), Expect = 4e-09
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 279 DFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDL 338
+ + + L A G V+ L+ GADVN D+ G L A H ++
Sbjct: 5 HHHHHH-GSDLGKKLLEAARAGRDDEVRILMAN-GADVNAEDASGWTPLHLAAFNGHLEI 62
Query: 339 IEYLVNSG 346
+E L+ +G
Sbjct: 63 VEVLLKNG 70
Score = 43.1 bits (103), Expect = 3e-05
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 8/64 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N ++ A G L++ V+ L K ++N D+ G + D G+ + +
Sbjct: 107 NANDMEGHTPLHLAAMFGHLEI-VEVLLK-NGADVNAQDKFGKTAFDISIDNGNEDLAEI 164
Query: 308 LIEK 311
L +
Sbjct: 165 LQKL 168
>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle
inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A
{Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A
1mx2_A 1mx6_A
Length = 162
Score = 66.6 bits (164), Expect = 2e-13
Identities = 24/99 (24%), Positives = 46/99 (46%), Gaps = 8/99 (8%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ K+ + A+ G LD ++ L + ++N D G LH A GHL+VV+
Sbjct: 64 DLKDRTGFAVIHDAARAGFLDT-LQTLLE-FQADVNIEDNEGNLPLHLAAKEGHLRVVEF 121
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ ++V + GD D A+ +++ + +G
Sbjct: 122 LVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANG 160
Score = 66.3 bits (163), Expect = 2e-13
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 8/98 (8%)
Query: 254 NEKNIYEW-----AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHL 308
N +N + K G ++ ++L + N + D G +H A G L +Q L
Sbjct: 32 NAQNGFGRTALQVMKLGNPEI-ARRLLL-RGANPDLKDRTGFAVIHDAARAGFLDTLQTL 89
Query: 309 IEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+E ADVN+ D++G+ L A H ++E+LV
Sbjct: 90 LEF-QADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHT 126
Score = 56.6 bits (138), Expect = 5e-10
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 285 LDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
+ E N L A RG L+ + L++ +VN + G L + + ++ L+
Sbjct: 1 MAEPWGNELASAAARGDLEQLTSLLQN-NVNVNAQNGFGRTALQVM-KLGNPEIARRLLL 58
Query: 345 SG 346
G
Sbjct: 59 RG 60
Score = 53.5 bits (130), Expect = 6e-09
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 2/66 (3%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+N + G L G+ ++ + L+ + GA+ ++ D G + A D ++
Sbjct: 30 NVNAQNGFGRTALQVMK-LGNPEIARRLLLR-GANPDLKDRTGFAVIHDAARAGFLDTLQ 87
Query: 341 YLVNSG 346
L+
Sbjct: 88 TLLEFQ 93
>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 = 65.2 bits (159), Expect = 2e-13
Identities = 22/66 (33%), Positives = 27/66 (40%), Gaps = 11/66 (16%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-- 61
S R N++ V LP + S +LK E G + A V G G V F KE
Sbjct: 11 SRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVY-------RDGTGVVEFVRKEDM 63
Query: 62 --AVDK 65
AV K
Sbjct: 64 TYAVRK 69
>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 = 64.8 bits (158), Expect = 2e-13
Identities = 12/78 (15%), Positives = 34/78 (43%), Gaps = 5/78 (6%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYG-QIMNASVMFD-KNTGLSKGFGFVTFQNKEAVD-- 64
++F+G +P E+ + ++ +++ V + ++GF FV +++ A
Sbjct: 9 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 68
Query: 65 -KVFSTDSHVLEGSRLSI 81
+ L G ++++
Sbjct: 69 RRKLMPGRIQLWGHQIAV 86
>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase,
cyclin dependent kinase inhibitory protein, CDK, cell
cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A
1dc2_A 2a5e_A
Length = 156
Score = 66.0 bits (162), Expect = 2e-13
Identities = 24/99 (24%), Positives = 36/99 (36%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW-----AKEGKLDMLVKQLTKLKDFNINQLDENGLNC-LHWACDRGHLKVVQH 307
N N Y G + + L N D L +H A G L +
Sbjct: 39 NAPNSYGRRPIQVMMMGSARV-AELLLL-HGAEPNCADPATLTRPVHDAAREGFLDTLVV 96
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L GA ++V D+ G +D A+ + H D+ YL +
Sbjct: 97 LHRA-GARLDVRDAWGRLPVDLAEELGHRDVARYLRAAA 134
Score = 61.7 bits (151), Expect = 7e-12
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNS 345
E + L A RG ++ V+ L+E GA+ N +S G + + + E L+
Sbjct: 9 MEPSADWLATAAARGRVEEVRALLEA-GANPNAPNSYGRRPIQVM-MMGSARVAELLLLH 66
Query: 346 G 346
G
Sbjct: 67 G 67
Score = 61.3 bits (150), Expect = 1e-11
Identities = 18/86 (20%), Positives = 32/86 (37%), Gaps = 5/86 (5%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A G+++ V+ L + N N + G + G +V + L+ GA+ N D
Sbjct: 20 AARGRVEE-VRALLE-AGANPNAPNSYGRRPIQVMM-MGSARVAELLLLH-GAEPNCADP 75
Query: 322 DGDYG-LDYAKAIEHTDLIEYLVNSG 346
+ A D + L +G
Sbjct: 76 ATLTRPVHDAAREGFLDTLVVLHRAG 101
Score = 54.4 bits (132), Expect = 3e-09
Identities = 14/77 (18%), Positives = 26/77 (33%), Gaps = 10/77 (12%)
Query: 254 NEKNIYEW-------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
N + A+EG LD + L + ++ D G + A + GH V +
Sbjct: 71 NCADPATLTRPVHDAAREGFLDT-LVVLHR-AGARLDVRDAWGRLPVDLAEELGHRDVAR 128
Query: 307 HLIEKCGADVNVTDSDG 323
+L ++
Sbjct: 129 YLRAA-AGGTRGSNHAR 144
>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 = 64.8 bits (158), Expect = 2e-13
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 7/62 (11%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAV 63
S R N++ V LP + S +LK E G + A V G G V F KE +
Sbjct: 12 SRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVY-------RDGTGVVEFVRKEDM 64
Query: 64 DK 65
Sbjct: 65 TY 66
>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription
factors, ikappab proteins; 1.86A {Homo sapiens} SCOP:
d.211.1.1 PDB: 1k1b_A
Length = 241
Score = 67.9 bits (167), Expect = 2e-13
Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+N +G + LH A RG L +V+ L+ GAD ++ + D L A++ D++
Sbjct: 175 NVNAQMYSGSSALHSASGRGLLPLVRTLVRS-GADSSLKNCHNDTPLMVARSRRVIDILR 233
Query: 341 YLVNSG 346
Sbjct: 234 GKATRP 239
Score = 63.6 bits (156), Expect = 6e-12
Identities = 18/102 (17%), Positives = 29/102 (28%), Gaps = 11/102 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDF---NINQLDENGLNCLHWACDRGHLKV 304
+ +G L V +L L ++ + LH A V
Sbjct: 3 TRADEDGDTPLHIAVVQGNLPA-VHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV 61
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
V+ L+ GA D G A + L++S
Sbjct: 62 VRLLVTA-GASPMALDRHGQTAAHLACEHRSPTCLRALLDSA 102
Score = 63.2 bits (155), Expect = 8e-12
Identities = 19/103 (18%), Positives = 39/103 (37%), Gaps = 12/103 (11%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTK---LKDFNINQLDENGLNCLHWACDRGHLKV 304
+ + + ++ L ++ + +GL LH A + +
Sbjct: 73 MALDRHGQTAAHLACEHRSPTC-LRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQET 131
Query: 305 VQHLIEKCGADVNVTDS-DGDYGLDYAKAIEHTDLIEYLVNSG 346
VQ L+E+ GAD++ D G L +A +++ L+ G
Sbjct: 132 VQLLLER-GADIDAVDIKSGRSPLIHAVENNSLSMVQLLLQHG 173
Score = 61.7 bits (151), Expect = 3e-11
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 10/106 (9%)
Query: 248 ESQLDDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLD-ENGLNCLHWACDRG 300
LD +N + V+ L + + +I+ +D ++G + L A +
Sbjct: 104 PGTLDLEARNYDGLTALHVAVNTECQET-VQLLLE-RGADIDAVDIKSGRSPLIHAVENN 161
Query: 301 HLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L +VQ L++ GA+VN G L A L+ LV SG
Sbjct: 162 SLSMVQLLLQH-GANVNAQMYSGSSALHSASGRGLLPLVRTLVRSG 206
Score = 59.0 bits (144), Expect = 2e-10
Identities = 19/103 (18%), Positives = 35/103 (33%), Gaps = 13/103 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ N + V+ L + LD +G H AC+ ++
Sbjct: 40 DIYNNLRQTPLHLAVITTLPSV-VRLLVT-AGASPMALDRHGQTAAHLACEHRSPTCLRA 97
Query: 308 LIEKCGA----DVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ A D+ + DG L A E + ++ L+ G
Sbjct: 98 LLDS-AAPGTLDLEARNYDGLTALHVAVNTECQETVQLLLERG 139
Score = 56.3 bits (137), Expect = 2e-09
Identities = 16/68 (23%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 282 INQLDENGLNCLHWACDRGHLKVVQHLIE---KCGADVNVTDSDGDYGLDYAKAIEHTDL 338
+ DE+G LH A +G+L V L+ + G ++++ ++ L A +
Sbjct: 2 ATRADEDGDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV 61
Query: 339 IEYLVNSG 346
+ LV +G
Sbjct: 62 VRLLVTAG 69
>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP:
k.37.1.1
Length = 93
Score = 63.9 bits (157), Expect = 3e-13
Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A+ G L++ VK L + ++N D+NG LH A GHL+VV+ L+E GADVN D
Sbjct: 10 ARNGHLEV-VKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEA-GADVNAKDK 66
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
+G L A H ++++ L+ +G
Sbjct: 67 NGRTPLHLAARNGHLEVVKLLLEAG 91
Score = 58.9 bits (144), Expect = 2e-11
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
NG LH A GHL+VV+ L+E GADVN D +G L A H ++++ L+ +G
Sbjct: 1 NGRTPLHLAARNGHLEVVKLLLEA-GADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAG 58
Score = 48.5 bits (117), Expect = 9e-08
Identities = 24/67 (35%), Positives = 35/67 (52%), Gaps = 9/67 (13%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K+ A+ G L++ VK L + ++N D+NG LH A GHL+VV+
Sbjct: 29 NAKDKNGRTPLHLAARNGHLEV-VKLLLE-AGADVNAKDKNGRTPLHLAARNGHLEVVKL 86
Query: 308 LIEKCGA 314
L+E GA
Sbjct: 87 LLEA-GA 92
>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 = 64.4 bits (157), Expect = 3e-13
Identities = 12/74 (16%), Positives = 33/74 (44%), Gaps = 2/74 (2%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ V +P++ N+++ FF ++ ++ D G + G G V F + + + +
Sbjct: 19 VSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV-GRNNGNGLVKFLSPQDTFEALKRN 76
Query: 71 SHVLEGSRLSIQPS 84
++ + + P+
Sbjct: 77 RMLMIQRYVEVSPA 90
>1awc_B Protein (GA binding protein beta 1); complex (transcription
regulation/DNA), DNA-binding, nuclear protein, ETS
domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus
musculus} SCOP: d.211.1.1
Length = 153
Score = 65.5 bits (161), Expect = 4e-13
Identities = 26/95 (27%), Positives = 42/95 (44%), Gaps = 9/95 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + + A EG ++ V+ L K ++N D + LHWA + H +VV+
Sbjct: 61 DARTKVDRTPLHMAASEGHANI-VEVLLK-HGADVNAKDMLKMTALHWATEHNHQEVVEL 118
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
LI+ GADV+ D + + DL E L
Sbjct: 119 LIKY-GADVHTQSKFCKTAFDISIDNGNEDLAEIL 152
Score = 58.2 bits (142), Expect = 1e-10
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ + + LH A GH +V+ L++ GADVN D L +A H +++E
Sbjct: 59 SRDARTKVDRTPLHMAASEGHANIVEVLLKH-GADVNAKDMLKMTALHWATEHNHQEVVE 117
Query: 341 YLVNSG 346
L+ G
Sbjct: 118 LLIKYG 123
Score = 53.5 bits (130), Expect = 4e-09
Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 2/66 (3%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
D G + LH A GH + L+ G + L A + H +++E
Sbjct: 27 PFTT-DWLGTSPLHLAAQYGHFSTTEVLLRA-GVSRDARTKVDRTPLHMAASEGHANIVE 84
Query: 341 YLVNSG 346
L+ G
Sbjct: 85 VLLKHG 90
Score = 44.7 bits (107), Expect = 5e-06
Identities = 16/59 (27%), Positives = 21/59 (35%), Gaps = 2/59 (3%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ L A G V+ L+ GA TD G L A H E L+ +G
Sbjct: 1 DLGKKLLEAARAGQDDEVRILMAN-GAPFT-TDWLGTSPLHLAAQYGHFSTTEVLLRAG 57
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
PDB: 2dk2_A
Length = 103
Score = 63.8 bits (156), Expect = 4e-13
Identities = 21/81 (25%), Positives = 40/81 (49%), Gaps = 9/81 (11%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
S+ + ++ +FV NL TV+ L+K FS++G++ + K + F+ F ++
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL--------KDYAFIHFDERD 56
Query: 62 -AVDKVFSTDSHVLEGSRLSI 81
AV + + LEG + I
Sbjct: 57 GAVKAMEEMNGKDLEGENIEI 77
>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 = 63.9 bits (156), Expect = 5e-13
Identities = 19/91 (20%), Positives = 42/91 (46%), Gaps = 5/91 (5%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVDKVFST 69
+++ NLP+ ++ E+ F +YG I V NT ++G +V +++ A + V
Sbjct: 11 LYIRNLPYKITAEEMYDIFGKYGPIRQIRVG---NTPETRGTAYVVYEDIFDAKNAVDHL 67
Query: 70 DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQ 100
+ L + ++ NR + M+ + +
Sbjct: 68 SGFNVSNRYLVVLYYNA-NRAFQKMDTKKKE 97
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 97
Score = 63.3 bits (154), Expect = 6e-13
Identities = 16/83 (19%), Positives = 28/83 (33%), Gaps = 6/83 (7%)
Query: 3 NSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
++VGNLP ++LK+ E G SV + F+ + + A
Sbjct: 14 EGAPLAADVYVGNLPRDARVSDLKRALRELG-----SVPLRLTWQGPRRRAFLHYPDSAA 68
Query: 63 VDKVFST-DSHVLEGSRLSIQPS 84
+ S L L + +
Sbjct: 69 AQQAVSCLQGLRLGTDTLRVALA 91
>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene
family, nuclear protein, phosphorylation, disease
mutation, polymorphism; 2.20A {Homo sapiens} SCOP:
b.34.2.1 d.211.1.1 PDB: 4a63_B
Length = 239
Score = 66.5 bits (163), Expect = 6e-13
Identities = 25/85 (29%), Positives = 48/85 (56%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
+ EG+ D+ V+++ + + + ++ G+ LH A GH ++V+ L++ G +VN DS
Sbjct: 45 SLEGEFDL-VQRIIY-EVDDPSLPNDEGITALHNAVCAGHTEIVKFLVQF-GVNVNAADS 101
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
DG L A + + + ++LV SG
Sbjct: 102 DGWTPLHCAASCNNVQVCKFLVESG 126
Score = 59.9 bits (146), Expect = 1e-10
Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 4/85 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
+ + + + L L + G +VQ +I + D ++ +
Sbjct: 13 KRTNLRKT-GSERIA-HGMRVK-FNPLPLALLLDSSLEGEFDLVQRIIYE-VDDPSLPND 68
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
+G L A HT+++++LV G
Sbjct: 69 EGITALHNAVCAGHTEIVKFLVQFG 93
Score = 57.2 bits (139), Expect = 1e-09
Identities = 11/94 (11%), Positives = 27/94 (28%), Gaps = 12/94 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNC---LHWACDRGHLKV 304
N + W A + + K L + + + + + + G+ +
Sbjct: 97 NAADSDGWTPLHCAASCNNVQV-CKFLVE-SGAAVFAMTYSDMQTAADKCEEMEEGYTQC 154
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDL 338
Q L + + + Y L + +L
Sbjct: 155 SQFLYGV-QEKMGIMNKGVIYALWDYEPQNDDEL 187
Score = 52.2 bits (126), Expect = 4e-08
Identities = 9/61 (14%), Positives = 15/61 (24%), Gaps = 2/61 (3%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNS 345
+ G L K I G V L + DL++ ++
Sbjct: 2 EITGQVSLPPGKRTNLRKTGSERIAH-GMRVKFNP-LPLALLLDSSLEGEFDLVQRIIYE 59
Query: 346 G 346
Sbjct: 60 V 60
Score = 28.7 bits (65), Expect = 2.5
Identities = 9/75 (12%), Positives = 24/75 (32%), Gaps = 6/75 (8%)
Query: 258 IYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVN 317
E +EG + L + +++ + L + L K G +
Sbjct: 143 KCEEMEEGYTQC-SQFLYG-VQEKMGIMNKGVIYALWDYEPQNDD----ELPMKEGDCMT 196
Query: 318 VTDSDGDYGLDYAKA 332
+ + + +++ A
Sbjct: 197 IIHREDEDEIEWWWA 211
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain,
RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 63.4 bits (155), Expect = 6e-13
Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 2/59 (3%)
Query: 7 QLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
Q ++VGNL V+ + + FS+ G + ++ + + + FV F
Sbjct: 14 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN--DPYCFVEFYEHRDAAA 70
>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 = 62.8 bits (153), Expect = 6e-13
Identities = 16/83 (19%), Positives = 25/83 (30%), Gaps = 8/83 (9%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ I V NLP + E+ +Y +K FVT N E
Sbjct: 6 SGILVKNLPQDSNCQEVHDLLKDYDLK-------YCYVDRNKRTAFVTLLNGEQAQNAIQ 58
Query: 69 T-DSHVLEGSRLSIQPSDSHNRM 90
+ G L +Q + +
Sbjct: 59 MFHQYSFRGKDLIVQLQPTDALL 81
>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR
{Escherichia coli}
Length = 115
Score = 63.2 bits (155), Expect = 8e-13
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N ++G LH A GH ++V+ L+ K GADVN DG+ AK H ++++
Sbjct: 34 DVNARSKDGNTPLHLAAKNGHAEIVKLLLAK-GADVNARSKDGNTPEHLAKKNGHHEIVK 92
Query: 341 YLVNSG 346
L G
Sbjct: 93 LLDAKG 98
Score = 58.5 bits (143), Expect = 4e-11
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 9/82 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N ++ AK G ++ VK L K ++N ++G H A GH ++V+
Sbjct: 36 NARSKDGNTPLHLAAKNGHAEI-VKLLLA-KGADVNARSKDGNTPEHLAKKNGHHEIVKL 93
Query: 308 LIEKCGADVNVTDSDGDYGLDY 329
L K GADVN + +
Sbjct: 94 LDAK-GADVNARSWGSSHHHHH 114
Score = 57.8 bits (141), Expect = 8e-11
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++G LH A GH + V+ L+ K GADVN DG+ L A H ++++
Sbjct: 3 MWG--SKDGNTPLHNAAKNGHAEEVKKLLSK-GADVNARSKDGNTPLHLAAKNGHAEIVK 59
Query: 341 YLVNSG 346
L+ G
Sbjct: 60 LLLAKG 65
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 62.5 bits (152), Expect = 9e-13
Identities = 15/81 (18%), Positives = 34/81 (41%), Gaps = 10/81 (12%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE---- 61
+++ K+ + N+P + L +YG + + + + VT+ +K+
Sbjct: 13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET---AVVNVTYSSKDQARQ 69
Query: 62 AVDKVFSTDSHVLEGSRLSIQ 82
A+DK+ + LE L +
Sbjct: 70 ALDKL---NGFQLENFTLKVA 87
>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 = 62.3 bits (152), Expect = 9e-13
Identities = 13/78 (16%), Positives = 33/78 (42%), Gaps = 2/78 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ + + P+ V+ + +F + + ++ + + G G+ FV F N+E V +
Sbjct: 11 HTVKLRGAPFNVTEKNVMEFLAPLK-PVAIRIVRNAH-GNKTGYIFVDFSNEEEVKQALK 68
Query: 69 TDSHVLEGSRLSIQPSDS 86
+ + G + + S
Sbjct: 69 CNREYMGGRYIEVFREKS 86
>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats,
methyllyine binding, huntingti interacting protein 14,
acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo
sapiens}
Length = 240
Score = 65.9 bits (162), Expect = 1e-12
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++ +D+ + A G + + L+E G DV D + L +A DL++
Sbjct: 1 HMTHIDDYSTWDIVKATQYGIYERCRELVEA-GYDVRQPDKENVTLLHWAAINNRIDLVK 59
Query: 341 YLVNSG 346
Y ++ G
Sbjct: 60 YYISKG 65
Score = 64.4 bits (158), Expect = 4e-12
Identities = 21/100 (21%), Positives = 41/100 (41%), Gaps = 10/100 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ Y + G + ++L + +++ Q D+ + LHWA + +V++
Sbjct: 3 THIDDYSTWDIVKATQYGIYER-CRELVE-AGYDVRQPDKENVTLLHWAAINNRIDLVKY 60
Query: 308 LIEKCGADVNVTDSD-GDYGLDYAKAIEHTDLIEYLVNSG 346
I K GA V+ D L +A H ++ L+ G
Sbjct: 61 YISK-GAIVDQLGGDLNSTPLHWATRQGHLSMVVQLMKYG 99
Score = 62.5 bits (153), Expect = 1e-11
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 281 NINQLDE-NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLI 339
++N D+ + LHWA G+ V+ L+E GA+V+ + G+ LD AK ++ +I
Sbjct: 168 SVNLGDKYHKNTALHWAVLAGNTTVISLLLEA-GANVDAQNIKGESALDLAKQRKNVWMI 226
Query: 340 EYLVNSG 346
+L +
Sbjct: 227 NHLQEAR 233
Score = 61.7 bits (151), Expect = 3e-11
Identities = 28/86 (32%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
++G L M V QL K + + +D G +C+H A GH +V +LI K G DV++ D
Sbjct: 84 TRQGHLSM-VVQLMK-YGADPSLIDGEGCSCIHLAAQFGHTSIVAYLIAK-GQDVDMMDQ 140
Query: 322 DGDYGLDYAKAIEHT-DLIEYLVNSG 346
+G L +A H+ D L+
Sbjct: 141 NGMTPLMWAAYRTHSVDPTRLLLTFN 166
Score = 57.4 bits (140), Expect = 9e-10
Identities = 23/101 (22%), Positives = 43/101 (42%), Gaps = 11/101 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGH-LKVVQ 306
+ + A+ G + V L K +++ +D+NG+ L WA R H + +
Sbjct: 103 SLIDGEGCSCIHLAAQFGHTSI-VAYLIA-KGQDVDMMDQNGMTPLMWAAYRTHSVDPTR 160
Query: 307 HLIEKCGADVNVTD-SDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ VN+ D + L +A +T +I L+ +G
Sbjct: 161 LLLTF-NVSVNLGDKYHKNTALHWAVLAGNTTVISLLLEAG 200
Score = 42.4 bits (101), Expect = 8e-05
Identities = 8/40 (20%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
N++ + G + L A R ++ ++ HL E +
Sbjct: 202 NVDAQNIKGESALDLAKQRKNVWMINHLQEA-RQAKGYDN 240
>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 = 62.3 bits (152), Expect = 1e-12
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 7/73 (9%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVDKVFS 68
++V NL + S ++K F+ V + + FV F N+E AV+ + +
Sbjct: 17 ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK------KIRDYAFVHFSNREDAVEAMKA 70
Query: 69 TDSHVLEGSRLSI 81
+ VL+GS + +
Sbjct: 71 LNGKVLDGSPIEV 83
>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A
{Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B
Length = 156
Score = 64.0 bits (157), Expect = 1e-12
Identities = 25/97 (25%), Positives = 40/97 (41%), Gaps = 10/97 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N ++ A+ G LD +K L + ++N D G +H A GH VV
Sbjct: 62 NVQDTSGTSPVHDAARTGFLDT-LKVLVE-HGADVNVPDGTGALPIHLAVQEGHTAVVSF 119
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
L +D++ D+ G L+ A DL++ L
Sbjct: 120 LAA--ESDLHRRDARGLTPLELALQRGAQDLVDILQG 154
Score = 63.6 bits (156), Expect = 2e-12
Identities = 25/96 (26%), Positives = 41/96 (42%), Gaps = 8/96 (8%)
Query: 254 NEKNIYEW-----AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHL 308
+ N + G + +L K + + N D +G + +H A G L ++ L
Sbjct: 30 DALNRFGKTALQVMMFGSTAI-ALELLK-QGASPNVQDTSGTSPVHDAARTGFLDTLKVL 87
Query: 309 IEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVN 344
+E GADVNV D G + A HT ++ +L
Sbjct: 88 VEH-GADVNVPDGTGALPIHLAVQEGHTAVVSFLAA 122
Score = 61.3 bits (150), Expect = 1e-11
Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A G + V++L + + + L+ G L G + L+++ GA NV D+
Sbjct: 10 AARGDVQE-VRRLLHRELVHPDALNRFGKTALQVMM-FGSTAIALELLKQ-GASPNVQDT 66
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
G + A D ++ LV G
Sbjct: 67 SGTSPVHDAARTGFLDTLKVLVEHG 91
Score = 58.2 bits (142), Expect = 1e-10
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 1/54 (1%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L A RG ++ V+ L+ + + + G L T + L+ G
Sbjct: 6 LSGAAARGDVQEVRRLLHRELVHPDALNRFGKTALQVM-MFGSTAIALELLKQG 58
>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein
binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium}
Length = 192
Score = 64.7 bits (159), Expect = 1e-12
Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 9/96 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K+ G +M L + N+N + G L A G ++V+
Sbjct: 95 NTKDFSGKTPLMWSIIFGYSEM-SYFLLE-HGANVNDRNLEGETPLIVASKYGRSEIVKK 152
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLV 343
L+E GAD++ D G A+ ++I+
Sbjct: 153 LLEL-GADISARDLTGLTAEASARIFGRQEVIKIFT 187
Score = 61.3 bits (150), Expect = 2e-11
Identities = 24/99 (24%), Positives = 47/99 (47%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+K+I K +L + ++L K N+N D +G L W+ G+ ++
Sbjct: 62 EDKDIEGSTALIWAVKNNRLGI-AEKLLS-KGSNVNTKDFSGKTPLMWSIIFGYSEMSYF 119
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+E GA+VN + +G+ L A +++++ L+ G
Sbjct: 120 LLEH-GANVNDRNLEGETPLIVASKYGRSEIVKKLLELG 157
Score = 60.1 bits (147), Expect = 5e-11
Identities = 17/68 (25%), Positives = 25/68 (36%), Gaps = 1/68 (1%)
Query: 279 DFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDL 338
DF N D L AC G + L+E + D +G L +A +
Sbjct: 25 DFLRNYRDSYNRTPLMVACMLGMENAIDKLVEN-FDKLEDKDIEGSTALIWAVKNNRLGI 83
Query: 339 IEYLVNSG 346
E L++ G
Sbjct: 84 AEKLLSKG 91
Score = 40.8 bits (97), Expect = 2e-04
Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N++N+ +K G+ ++ VK+L + +I+ D GL A G +V++
Sbjct: 128 NDRNLEGETPLIVASKYGRSEI-VKKLLE-LGADISARDLTGLTAEASARIFGRQEVIKI 185
Query: 308 LIE 310
E
Sbjct: 186 FTE 188
>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell
cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A
2f8x_K 3nbn_B 3v79_K* 1ot8_A
Length = 253
Score = 65.6 bits (161), Expect = 2e-12
Identities = 18/99 (18%), Positives = 32/99 (32%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + A +D L K N + + L A G + +
Sbjct: 151 NAVDDLGKSALHWAAAVNNVDA-AVVLLK-NGANKDMQNNREETPLFLAAREGSYETAKV 208
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ A+ ++TD D A+ H D++ L
Sbjct: 209 LLDH-FANRDITDHMDRLPRDIAQERMHHDIVRLLDLEH 246
Score = 61.7 bits (151), Expect = 3e-11
Identities = 17/101 (16%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
D + + A+ M ++ L ++N +D+ G + LHWA ++
Sbjct: 116 DLDARMHDGTTPLILAARLAVEGM-LEDLIN-SHADVNAVDDLGKSALHWAAAVNNVDAA 173
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GA+ ++ ++ + L A + + L++
Sbjct: 174 VVLLKN-GANKDMQNNREETPLFLAAREGSYETAKVLLDHF 213
Score = 60.2 bits (147), Expect = 1e-10
Identities = 24/100 (24%), Positives = 37/100 (37%), Gaps = 8/100 (8%)
Query: 253 DNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
N+ + A+ + D K+L + + N D G LH A V Q
Sbjct: 50 HNQTDRTGETALHLAARYSRSDA-AKRLLE-ASADANIQDNMGRTPLHAAVSADAQGVFQ 107
Query: 307 HLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LI D++ DG L A + ++E L+NS
Sbjct: 108 ILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDLINSH 147
Score = 46.7 bits (112), Expect = 3e-06
Identities = 14/70 (20%), Positives = 24/70 (34%), Gaps = 9/70 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ +N E A+EG + K L N + D A +R H +V+
Sbjct: 184 DMQNNREETPLFLAAREGSYET-AKVLLD-HFANRDITDHMDRLPRDIAQERMHHDIVRL 241
Query: 308 LIEKCGADVN 317
L + +
Sbjct: 242 LDLE-HHHHH 250
Score = 45.5 bits (109), Expect = 9e-06
Identities = 17/80 (21%), Positives = 28/80 (35%), Gaps = 15/80 (18%)
Query: 281 NINQLDENGLNCLHWACDRG-------------HLKVVQHLIEKCGADV-NVTDSDGDYG 326
++N +G L A G V+ I + GA + N TD G+
Sbjct: 2 DVNVRGPDGFTPLMIASCSGGGLETGNSEEEEDAPAVISDFIYQ-GASLHNQTDRTGETA 60
Query: 327 LDYAKAIEHTDLIEYLVNSG 346
L A +D + L+ +
Sbjct: 61 LHLAARYSRSDAAKRLLEAS 80
>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate
recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo
sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A
3twq_A 3twu_A 2y0i_S*
Length = 165
Score = 63.6 bits (156), Expect = 2e-12
Identities = 21/99 (21%), Positives = 37/99 (37%), Gaps = 10/99 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ K+ G ++ + L K +N D LH A +G ++ +
Sbjct: 69 HAKDKGGLVPLHNACSYGHYEV-AELLVK-HGAVVNVADLWKFTPLHEAAAKGKYEICKL 126
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GAD + DG+ LD TD+ + L
Sbjct: 127 LLQH-GADPTKKNRDGNTPLDLV-KDGDTDIQDLLRGDA 163
Score = 62.8 bits (154), Expect = 3e-12
Identities = 26/85 (30%), Positives = 43/85 (50%), Gaps = 2/85 (2%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
AK G ++ VK+L ++ N ++ LH+A + VV++L++ GADV+ D
Sbjct: 16 AKAGDVET-VKKLCTVQSVNCRDIEGRQSTPLHFAAGYNRVSVVEYLLQH-GADVHAKDK 73
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
G L A + H ++ E LV G
Sbjct: 74 GGLVPLHNACSYGHYEVAELLVKHG 98
Score = 62.8 bits (154), Expect = 4e-12
Identities = 25/101 (24%), Positives = 45/101 (44%), Gaps = 9/101 (8%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
+ + + A ++ + V+ L + +++ D+ GL LH AC GH +V
Sbjct: 34 NCRDIEGRQSTPLHFAAGYNRVSV-VEYLLQ-HGADVHAKDKGGLVPLHNACSYGHYEVA 91
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ L++ GA VNV D L A A ++ + L+ G
Sbjct: 92 ELLVKH-GAVVNVADLWKFTPLHEAAAKGKYEICKLLLQHG 131
Score = 51.6 bits (125), Expect = 3e-08
Identities = 12/66 (18%), Positives = 21/66 (31%), Gaps = 3/66 (4%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N L A G ++ V+ L + + L +A ++E
Sbjct: 3 MGN---SEADRQLLEAAKAGDVETVKKLCTVQSVNCRDIEGRQSTPLHFAAGYNRVSVVE 59
Query: 341 YLVNSG 346
YL+ G
Sbjct: 60 YLLQHG 65
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome
biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae}
PDB: 2osr_A
Length = 111
Score = 61.8 bits (150), Expect = 3e-12
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 12/81 (14%)
Query: 6 RQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMF-DKNTGLSKGFGFVTFQNKE--- 61
+ +I + NLP S +LK E F NT G G + F ++E
Sbjct: 26 AKRYRITMKNLPEGCSWQDLKDLARENS----LETTFSSVNTRDFDGTGALEFPSEEILV 81
Query: 62 -AVDKVFSTDSHVLEGSRLSI 81
A++++ ++ GS +++
Sbjct: 82 EALERL---NNIEFRGSVITV 99
>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin
repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A
1ymp_A
Length = 223
Score = 64.0 bits (157), Expect = 3e-12
Identities = 18/99 (18%), Positives = 32/99 (32%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + A +D L K N + + L A G + +
Sbjct: 119 NAVDDLGKSALHWAAAVNNVDA-AVVLLK-NGANKDMQNNREETPLFLAAREGSYETAKV 176
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ A+ ++TD D A+ H D++ L
Sbjct: 177 LLDH-FANRDITDHMDRLPRDIAQERMHHDIVRLLDEYN 214
Score = 61.3 bits (150), Expect = 3e-11
Identities = 17/101 (16%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
D + + A+ M ++ L ++N +D+ G + LHWA ++
Sbjct: 84 DLDARMHDGTTPLILAARLAVEGM-LEDLIN-SHADVNAVDDLGKSALHWAAAVNNVDAA 141
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GA+ ++ ++ + L A + + L++
Sbjct: 142 VVLLKN-GANKDMQNNREETPLFLAAREGSYETAKVLLDHF 181
Score = 60.5 bits (148), Expect = 6e-11
Identities = 24/100 (24%), Positives = 37/100 (37%), Gaps = 8/100 (8%)
Query: 253 DNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
N+ + A+ + D K+L + + N D G LH A V Q
Sbjct: 18 HNQTDRTGETALHLAARYSRSDA-AKRLLE-ASADANIQDNMGRTPLHAAVSADAQGVFQ 75
Query: 307 HLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LI D++ DG L A + ++E L+NS
Sbjct: 76 ILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDLINSH 115
Score = 45.1 bits (108), Expect = 8e-06
Identities = 15/70 (21%), Positives = 24/70 (34%), Gaps = 9/70 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ +N E A+EG + K L N + D A +R H +V+
Sbjct: 152 DMQNNREETPLFLAAREGSYET-AKVLLD-HFANRDITDHMDRLPRDIAQERMHHDIVRL 209
Query: 308 LIEKCGADVN 317
L E +
Sbjct: 210 LDEY-NLVRS 218
Score = 33.5 bits (78), Expect = 0.070
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 300 GHLKVVQHLIEKCGADV-NVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
V+ I + GA + N TD G+ L A +D + L+ +
Sbjct: 2 DAPAVISDFIYQ-GASLHNQTDRTGETALHLAARYSRSDAAKRLLEAS 48
>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein,
human epidermal growth factor receptor 2, de novo
protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G
2v4h_C
Length = 136
Score = 62.0 bits (152), Expect = 4e-12
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 9/95 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N K+ Y G L++ V+ L K ++N +D G LH A GHL++ +
Sbjct: 41 NAKDEYGLTPLYLATAHGHLEI-VEVLLK-NGADVNAVDAIGFTPLHLAAFIGHLEIAEV 98
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
L++ GADVN D G D + + DL E L
Sbjct: 99 LLKH-GADVNAQDKFGKTAFDISIGNGNEDLAEIL 132
Score = 58.9 bits (144), Expect = 5e-11
Identities = 26/66 (39%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N DE GL L+ A GHL++V+ L++ GADVN D+ G L A I H ++ E
Sbjct: 39 DVNAKDEYGLTPLYLATAHGHLEIVEVLLKN-GADVNAVDAIGFTPLHLAAFIGHLEIAE 97
Query: 341 YLVNSG 346
L+ G
Sbjct: 98 VLLKHG 103
Score = 50.5 bits (122), Expect = 4e-08
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 279 DFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDL 338
+ + + L A G V+ L+ GADVN D G L A A H ++
Sbjct: 5 HHHHHH-GSDLGKKLLEAARAGQDDEVRILMAN-GADVNAKDEYGLTPLYLATAHGHLEI 62
Query: 339 IEYLVNSG 346
+E L+ +G
Sbjct: 63 VEVLLKNG 70
Score = 39.7 bits (94), Expect = 2e-04
Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 8/63 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + + A G L++ + L K ++N D+ G + G+ + +
Sbjct: 74 NAVDAIGFTPLHLAAFIGHLEI-AEVLLK-HGADVNAQDKFGKTAFDISIGNGNEDLAEI 131
Query: 308 LIE 310
L +
Sbjct: 132 LQK 134
>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo
protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A
Length = 110
Score = 61.1 bits (149), Expect = 5e-12
Identities = 24/62 (38%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++ D+NG LH A GHL+VV+ L+E GADV D G D + + DL E
Sbjct: 49 DVAAKDKNGSTPLHLAARNGHLEVVKLLLEA-GADVXAQDKFGKTAFDISIDNGNEDLAE 107
Query: 341 YL 342
L
Sbjct: 108 IL 109
Score = 55.7 bits (135), Expect = 3e-10
Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 4/66 (6%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++ + L A G V+ L+ GADV D +G L A H ++++
Sbjct: 19 HMG---SDLGKKLLEAARAGQDDEVRILMAN-GADVAAKDKNGSTPLHLAARNGHLEVVK 74
Query: 341 YLVNSG 346
L+ +G
Sbjct: 75 LLLEAG 80
Score = 41.4 bits (98), Expect = 4e-05
Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 4/51 (7%)
Query: 296 ACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
H L+ + G+ + SD L A D + L+ +G
Sbjct: 1 GSSHHHHHHSSGLVPR-GSHMG---SDLGKKLLEAARAGQDDEVRILMANG 47
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 60.4 bits (147), Expect = 5e-12
Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 6/52 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
++GN+P + +L F +G I++ + KG F+ + E
Sbjct: 30 AYIGNIPHFATEADLIPLFQNFGFILDFKHYPE------KGCCFIKYDTHEQ 75
>2xai_A ASB-9, ankyrin repeat and SOCS box protein 9; transcription
regulation, autoantibody; 2.58A {Homo sapiens}
Length = 261
Score = 64.0 bits (157), Expect = 6e-12
Identities = 14/99 (14%), Positives = 36/99 (36%), Gaps = 12/99 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ K + + + VK+L + ++NQ + + LH ++
Sbjct: 128 DHKISHLGTPLYLACENQQRAC-VKKLLE-SGADVNQ-GKGQDSPLHAVARTASEELACL 184
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GAD +++G ++ + L + +
Sbjct: 185 LMDF-GADTQAKNAEGKRPVELVP--PESPLAQLFLERE 220
Score = 63.2 bits (155), Expect = 1e-11
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A G ++ L + + +N + + ++ LH AC GHL V+ L++ GA VN +
Sbjct: 11 AIHGHQLS-LRNLIS-QGWAVNIITADHVSPLHEACLGGHLSCVKILLKH-GAQVNGVTA 67
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
D L A D + L+ G
Sbjct: 68 DWHTPLFNACVSGSWDCVNLLLQHG 92
Score = 61.3 bits (150), Expect = 4e-11
Identities = 20/99 (20%), Positives = 36/99 (36%), Gaps = 10/99 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N G D V L + ++ + + + +H A RGH++ V
Sbjct: 63 NGVTADWHTPLFNACVSGSWDC-VNLLLQ-HGASVQP-ESDLASPIHEAARRGHVECVNS 119
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
LI G +++ S L A + ++ L+ SG
Sbjct: 120 LIAY-GGNIDHKISHLGTPLYLACENQQRACVKKLLESG 157
Score = 60.1 bits (147), Expect = 1e-10
Identities = 22/85 (25%), Positives = 34/85 (40%), Gaps = 4/85 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A+ G ++ V L NI+ + L+ AC+ V+ L+E GADVN
Sbjct: 109 ARRGHVEC-VNSLIA-YGGNIDHKISHLGTPLYLACENQQRACVKKLLES-GADVN-QGK 164
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
D L +L L++ G
Sbjct: 165 GQDSPLHAVARTASEELACLLMDFG 189
Score = 54.4 bits (132), Expect = 9e-09
Identities = 4/66 (6%), Positives = 17/66 (25%), Gaps = 3/66 (4%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ + G + + Q +E+ ++ +H + +
Sbjct: 191 DTQAKNAEGKRPVELVPPESP--LAQLFLER-EGPPSLMQLCRLRIRKCFGIQQHHKITK 247
Query: 341 YLVNSG 346
++
Sbjct: 248 LVLPED 253
Score = 53.6 bits (130), Expect = 2e-08
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 288 NGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ + +H A GH +++LI + G VN+ +D L A H ++ L+ G
Sbjct: 2 SDWSPMHEAAIHGHQLSLRNLISQ-GWAVNIITADHVSPLHEACLGGHLSCVKILLKHG 59
Score = 40.5 bits (96), Expect = 4e-04
Identities = 7/64 (10%), Positives = 19/64 (29%), Gaps = 10/64 (15%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
KN E L + + ++ + + L + H K+ +
Sbjct: 193 QAKNAEGKRPVELVPPESPL---AQLFLE-REGPPSLMQLCRLRIRKCFGIQQHHKITKL 248
Query: 308 LIEK 311
++ +
Sbjct: 249 VLPE 252
>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 = 60.8 bits (148), Expect = 6e-12
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
++ G + ++ +++ FS +GQIM V + KG+ FV F E+
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHES 73
>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system,
signal sequence, ankyrin repeat, chromodomain, type I
turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2
k.37.1.1 PDB: 3dep_A 1x32_A
Length = 183
Score = 62.1 bits (152), Expect = 8e-12
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 5/86 (5%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A++ + QL L+D +++ +DENG L + G K V+ L E GAD++ D
Sbjct: 52 ARKADEQA-LSQL--LEDRDVDAVDENGRTALLFVAGLGSDKCVRLLAEA-GADLDHRDM 107
Query: 322 -DGDYGLDYAKAIEHTDLIEYLVNSG 346
G L A +++E LV G
Sbjct: 108 RGGLTALHMAAGYVRPEVVEALVELG 133
Score = 61.4 bits (150), Expect = 2e-11
Identities = 26/102 (25%), Positives = 40/102 (39%), Gaps = 10/102 (9%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLD-ENGLNCLHWACDRGHLKV 304
D + + A G V+ L + +++ D GL LH A +V
Sbjct: 68 DVDAVDENGRTALLFVAGLGSDKC-VRLLAE-AGADLDHRDMRGGLTALHMAAGYVRPEV 125
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
V+ L+E GAD+ V D G L+ A+ I T + G
Sbjct: 126 VEALVEL-GADIEVEDERGLTALELAREILKTTPKGNPMQFG 166
Score = 51.0 bits (123), Expect = 6e-08
Identities = 10/61 (16%), Positives = 20/61 (32%), Gaps = 2/61 (3%)
Query: 286 DENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNS 345
A + + + L+E DV+ D +G L + + + L +
Sbjct: 41 VSEYETPWWTAARKADEQALSQLLE--DRDVDAVDENGRTALLFVAGLGSDKCVRLLAEA 98
Query: 346 G 346
G
Sbjct: 99 G 99
Score = 44.0 bits (105), Expect = 2e-05
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTD 320
+I DE GL L A + + ++ G + +
Sbjct: 135 DIEVEDERGLTALELAREILKTTPKGNPMQF-GRRIGLEK 173
Score = 38.2 bits (90), Expect = 0.001
Identities = 9/68 (13%), Positives = 17/68 (25%), Gaps = 4/68 (5%)
Query: 276 KLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEH 335
++ ++ G GH ADV S+ + A
Sbjct: 1 EVNKIIGSRTAGEGAMEYLIEWKDGHSPSWVPSSYI-AADVV---SEYETPWWTAARKAD 56
Query: 336 TDLIEYLV 343
+ L+
Sbjct: 57 EQALSQLL 64
>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit);
transcription factor, IKB/NFKB complex; 2.30A {Homo
sapiens} SCOP: d.211.1.1 PDB: 1nfi_E
Length = 236
Score = 63.0 bits (154), Expect = 1e-11
Identities = 27/105 (25%), Positives = 45/105 (42%), Gaps = 14/105 (13%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTK-----LKDFNINQLDENGLNCLHWACDRGHL 302
++ ++G L V LT+ + + NG CLH A G+L
Sbjct: 72 ELRDFRGNTPLHLACEQGCLAS-VGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYL 130
Query: 303 KVVQHLIEKCGADVNVTD-SDGDYGLDYAKAIEHTDLIEYLVNSG 346
+V+ L+ GADVN + +G L A +++ DL+ L+ G
Sbjct: 131 GIVELLVSL-GADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCG 174
Score = 60.6 bits (148), Expect = 7e-11
Identities = 22/108 (20%), Positives = 34/108 (31%), Gaps = 10/108 (9%)
Query: 246 NDESQLDDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDE-NGLNCLHWACD 298
N + G L + V+ L ++N + NG LH A D
Sbjct: 103 TPHLHSILKATNYNGHTCLHLASIHGYLGI-VELLVS-LGADVNAQEPCNGRTALHLAVD 160
Query: 299 RGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ +V L++ GADVN G T + + L
Sbjct: 161 LQNPDLVSLLLKC-GADVNRVTYQGYSPYQLTWGRPSTRIQQQLGQLT 207
Score = 55.2 bits (134), Expect = 4e-09
Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 13/104 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N +N + + ++ + L + D G LH AC++G L V
Sbjct: 39 NFQNNLQQTPLHLAVITNQPEI-AEALLG-AGCDPELRDFRGNTPLHLACEQGCLASVGV 96
Query: 308 LIEKC-----GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L + C + + T+ +G L A + ++E LV+ G
Sbjct: 97 LTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLG 140
Score = 54.9 bits (133), Expect = 5e-09
Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+N + LH A ++ + L+ G D + D G+ L A +
Sbjct: 37 FLNFQNNLQQTPLHLAVITNQPEIAEALLGA-GCDPELRDFRGNTPLHLACEQGCLASVG 95
Query: 341 YLVNSG 346
L S
Sbjct: 96 VLTQSC 101
Score = 54.5 bits (132), Expect = 8e-09
Identities = 9/60 (15%), Positives = 21/60 (35%), Gaps = 1/60 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++N++ G + R ++ Q L + + + + Y E T+ E
Sbjct: 176 DVNRVTYQGYSPYQLTWGRPSTRIQQQLGQL-TLENLQMLPESEDEESYDTESEFTEFTE 234
Score = 45.2 bits (108), Expect = 9e-06
Identities = 15/67 (22%), Positives = 29/67 (43%), Gaps = 5/67 (7%)
Query: 284 QLDENGLNCLHWACDRGH----LKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLI 339
QL E+G + LH A ++V++ + A +N ++ L A ++
Sbjct: 3 QLTEDGDSFLHLAIIHEEKALTMEVIRQVKGD-LAFLNFQNNLQQTPLHLAVITNQPEIA 61
Query: 340 EYLVNSG 346
E L+ +G
Sbjct: 62 EALLGAG 68
>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H';
structural genomics, RRM domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 102
Score = 59.7 bits (145), Expect = 1e-11
Identities = 13/74 (17%), Positives = 27/74 (36%), Gaps = 2/74 (2%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTD 70
+ + LP+ + N++ FFS M + + G G V F E + D
Sbjct: 18 VHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPD-GRVTGEADVEFATHEDAVAAMAKD 75
Query: 71 SHVLEGSRLSIQPS 84
++ + + +
Sbjct: 76 KANMQHRYVELFLN 89
>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase
(M130), serine/threonine protein phosphatase PP1-beta
(OR delta) catalytic subunit; myosin phosphatase; HET:
PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1
Length = 299
Score = 63.3 bits (155), Expect = 2e-11
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 8/98 (8%)
Query: 254 NEKNIYEW-----AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHL 308
K G + V +L + + +IN + +GL LH AC ++ +V+ L
Sbjct: 35 KVKFDDGAVFLAACSSGDTEE-VLRLLE-RGADINYANVDGLTALHQACIDDNVDMVKFL 92
Query: 309 IEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+E GA++N D++G L A + + D+ EYL++ G
Sbjct: 93 VEN-GANINQPDNEGWIPLHAAASCGYLDIAEYLISQG 129
Score = 61.0 bits (149), Expect = 8e-11
Identities = 20/101 (19%), Positives = 35/101 (34%), Gaps = 9/101 (8%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVV 305
+D A +G ++ +K L + +++N D +G LH A G +
Sbjct: 191 NDVRHAKSGGTALHVAAAKGYTEV-LKLLIQ-ARYDVNIKDYDGWTPLHAAAHWGKEEAC 248
Query: 306 QHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ L+E D+ + G D A L E
Sbjct: 249 RILVEN-LCDMEAVNKVGQTAFDVADEDILGYLEELQKKQN 288
Score = 59.4 bits (145), Expect = 3e-10
Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 4/95 (4%)
Query: 252 DDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK 311
D E + D +Q N + ++G LH A +G+ +V++ LI+
Sbjct: 165 DIEAARKEEE-RIMLRD--ARQWLNSGHINDVRHAKSGGTALHVAAAKGYTEVLKLLIQA 221
Query: 312 CGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
DVN+ D DG L A + LV +
Sbjct: 222 -RYDVNIKDYDGWTPLHAAAHWGKEEACRILVENL 255
Score = 53.7 bits (130), Expect = 2e-08
Identities = 15/99 (15%), Positives = 38/99 (38%), Gaps = 15/99 (15%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N+ + W A G LD+ + L + ++ ++ G L A + +++Q+
Sbjct: 100 NQPDNEGWIPLHAAASCGYLDI-AEYLIS-QGAHVGAVNSEGDTPLDIAEEEAMEELLQN 157
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ + G D+ + + + D ++L +
Sbjct: 158 EVNRQGVDIEAARKEEERIM-------LRDARQWLNSGH 189
Score = 46.0 bits (110), Expect = 8e-06
Identities = 10/65 (15%), Positives = 18/65 (27%), Gaps = 2/65 (3%)
Query: 282 INQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEY 341
+ D G ++ + K V DG A + T+ +
Sbjct: 1 MKMADAKQKRNEQLKRWIGSETDLEPPVVK-RKKTKVKFDDG-AVFLAACSSGDTEEVLR 58
Query: 342 LVNSG 346
L+ G
Sbjct: 59 LLERG 63
>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT
signaling, POL ribosylation, transferase-signaling
protein complex; 2.00A {Mus musculus}
Length = 351
Score = 63.7 bits (156), Expect = 2e-11
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+N+ +++ + LH A +R H V++ L + GA +N DS G L A H
Sbjct: 239 NVNEKNKDFMTPLHVAAERAHNDVMEVLHKH-GAKMNALDSLGQTALHRAALAGHLQTCR 297
Query: 341 YLVNSG 346
L++ G
Sbjct: 298 LLLSYG 303
Score = 61.0 bits (149), Expect = 1e-10
Identities = 23/99 (23%), Positives = 44/99 (44%), Gaps = 9/99 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + + A ++ + V+ L + +++ D+ GL LH AC GH +V +
Sbjct: 52 HASDGRKSTPLHLAAGYNRVRI-VQLLLQ-HGADVHAKDKGGLVPLHNACSYGHYEVTEL 109
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GA VN D L A + ++ L++ G
Sbjct: 110 LLKH-GACVNAMDLWQFTPLHEAASKNRVEVCSLLLSHG 147
Score = 61.0 bits (149), Expect = 1e-10
Identities = 22/99 (22%), Positives = 39/99 (39%), Gaps = 14/99 (14%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
NEKN A+ D+ ++ L K +N LD G LH A GHL+ +
Sbjct: 241 NEKNKDFMTPLHVAAERAHNDV-MEVLHK-HGAKMNALDSLGQTALHRAALAGHLQTCRL 298
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ G+D ++ G + ++ +++
Sbjct: 299 LLSY-GSDPSIISLQGFTAAQMG-----NEAVQQILSES 331
Score = 54.0 bits (131), Expect = 2e-08
Identities = 24/100 (24%), Positives = 41/100 (41%), Gaps = 6/100 (6%)
Query: 250 QLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGH---LKVVQ 306
+ ++ + A+E L + K L + + ++ LH A H +V +
Sbjct: 174 TYEFKGHSLLQAAREADLAKVKKTL--ALEIINFKQPQSHETALHCAVASLHPKRKQVAE 231
Query: 307 HLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L+ K GA+VN + D L A H D++E L G
Sbjct: 232 LLLRK-GANVNEKNKDFMTPLHVAAERAHNDVMEVLHKHG 270
Score = 52.5 bits (127), Expect = 6e-08
Identities = 10/67 (14%), Positives = 22/67 (32%), Gaps = 2/67 (2%)
Query: 281 NINQLDENGLNCLHWACDRGHLK-VVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLI 339
E + L A G+ + ++ L + + +D L A ++
Sbjct: 16 KAVLTGEYKKDELLEAARSGNEEKLMALLTPL-NVNCHASDGRKSTPLHLAAGYNRVRIV 74
Query: 340 EYLVNSG 346
+ L+ G
Sbjct: 75 QLLLQHG 81
Score = 47.1 bits (113), Expect = 3e-06
Identities = 12/122 (9%), Positives = 35/122 (28%), Gaps = 31/122 (25%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N +++++ A + ++++ L + ++ +G + + A + + +
Sbjct: 118 NAMDLWQFTPLHEAASKNRVEV-CSLLLS-HGADPTLVNCHGKSAVDMAPTPELRERLTY 175
Query: 308 LIEK--------------------CGADVNVTDSDGDYGLDYAKAIEH---TDLIEYLVN 344
+ + L A A H + E L+
Sbjct: 176 EFKGHSLLQAAREADLAKVKKTLALEIINFKQPQSHETALHCAVASLHPKRKQVAELLLR 235
Query: 345 SG 346
G
Sbjct: 236 KG 237
Score = 38.6 bits (91), Expect = 0.002
Identities = 10/76 (13%), Positives = 21/76 (27%), Gaps = 14/76 (18%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N + A G L + L + + + G + VQ
Sbjct: 274 NALDSLGQTALHRAALAGHLQT-CRLLLS-YGSDPSIISLQGFTAAQMGNE-----AVQQ 326
Query: 308 LIEKCGADVNVTDSDG 323
++ + + +D D
Sbjct: 327 ILSE-STPMRTSDVDY 341
Score = 31.3 bits (72), Expect = 0.39
Identities = 9/46 (19%), Positives = 12/46 (26%), Gaps = 4/46 (8%)
Query: 303 KVVQHLIEKCGADVNVTDSDGDYGLDYAKAIE--HTDLIEYLVNSG 346
K L + A +T L A A L+ L
Sbjct: 5 KSALDLADP-SAKAVLTGEYKKDELLEA-ARSGNEEKLMALLTPLN 48
>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 = 60.2 bits (146), Expect = 2e-11
Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 2/76 (2%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+ + + LP+ + N++ FFS + + + G G V F E S
Sbjct: 47 HCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD-GRVTGEADVEFATHEEAVAAMS 104
Query: 69 TDSHVLEGSRLSIQPS 84
D ++ + + +
Sbjct: 105 KDRANMQHRYIELFLN 120
>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein
structure initiati midwest center F or structural
genomics, MCSG; 1.77A {Leptotrichia buccalis}
Length = 186
Score = 61.6 bits (150), Expect = 2e-11
Identities = 7/72 (9%), Positives = 24/72 (33%), Gaps = 6/72 (8%)
Query: 281 NINQLDENGLNCLHWACDRGHL------KVVQHLIEKCGADVNVTDSDGDYGLDYAKAIE 334
+I L + + + + + + + G + + D G L++ K +
Sbjct: 106 DITALYKPYKIVVFKNIFNYFVDENEMIPLYKLIFSQSGLQLLIKDKWGLTALEFVKRCQ 165
Query: 335 HTDLIEYLVNSG 346
++ + +
Sbjct: 166 KPIALKMMEDYI 177
Score = 52.0 bits (125), Expect = 3e-08
Identities = 13/87 (14%), Positives = 23/87 (26%), Gaps = 9/87 (10%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKV------VQHLIEKCGAD 315
E + + L K +I + G G + + +EK GAD
Sbjct: 50 NDEARYKI-SMFLIN-KGADIKSRTKEGTTLFFPLFQGGGNDITGTTELCKIFLEK-GAD 106
Query: 316 VNVTDSDGDYGLDYAKAIEHTDLIEYL 342
+ + D E +
Sbjct: 107 ITALYKPYKIVVFKNIFNYFVDENEMI 133
Score = 52.0 bits (125), Expect = 3e-08
Identities = 8/80 (10%), Positives = 20/80 (25%), Gaps = 12/80 (15%)
Query: 254 NEKNIYEW------AKEGKLDM-----LVKQLTKLKDFNINQLDENGLNCLHWACDRGHL 302
+D L K + + D+ GL L +
Sbjct: 108 TALYKPYKIVVFKNIFNYFVDENEMIPLYKLIFSQSGLQLLIKDKWGLTALEFVKRCQKP 167
Query: 303 KVVQHLIEKCGADVNVTDSD 322
++ + + N+ ++
Sbjct: 168 IALKMMEDY-IKKYNLKENS 186
Score = 50.4 bits (121), Expect = 1e-07
Identities = 16/101 (15%), Positives = 29/101 (28%), Gaps = 8/101 (7%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFN-INQLDENGLNCLHWACDRGHLKVVQHLIEK 311
+ + A G + ++ K + + L D K+ LI K
Sbjct: 5 SEYRTVSAAAMLGTYEDFLELFEKGYEDKESVLKSNILYDVLRNNNDEARYKISMFLINK 64
Query: 312 CGADVNVTDSDGDYGLDYA------KAIEHTDLIEYLVNSG 346
GAD+ +G T+L + + G
Sbjct: 65 -GADIKSRTKEGTTLFFPLFQGGGNDITGTTELCKIFLEKG 104
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif,
RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 111
Score = 59.5 bits (144), Expect = 2e-11
Identities = 17/82 (20%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 5 IRQLNKIFVGNLPWTVSHNEL---KKFFSEYGQIMNASVMFDKNTGLSK---GFGFVTFQ 58
+ Q N +FV L ++ E+ ++F ++G+I + + S+ +VT+
Sbjct: 12 VVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYI 71
Query: 59 NKE-AVDKVFSTDSHVLEGSRL 79
E A+ + ++ V++G L
Sbjct: 72 RSEDALRAIQCVNNVVVDGRTL 93
>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics,
PSI, protein structure initiative; 2.80A {Legionella
pneumophila} SCOP: a.118.24.1
Length = 376
Score = 63.8 bits (155), Expect = 2e-11
Identities = 16/89 (17%), Positives = 26/89 (29%), Gaps = 5/89 (5%)
Query: 260 EWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVT 319
LD L LT D + + A + GHL V+ L E +
Sbjct: 101 ITGCSSALDTLCLLLTS--DEIVKVIQAENYQAFRLAAENGHLHVLNRLCEL-APTEIMA 157
Query: 320 D--SDGDYGLDYAKAIEHTDLIEYLVNSG 346
++ + A H ++ L
Sbjct: 158 MIQAENYHAFRLAAENGHLHVLNRLCELA 186
Score = 59.2 bits (143), Expect = 5e-10
Identities = 18/107 (16%), Positives = 38/107 (35%), Gaps = 14/107 (13%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLK-DFNINQLDENGLNCLHWACDRGHLKV 304
+ A+ G L + + +L +L + + + A + GHL V
Sbjct: 120 IVKVIQAENYQAFRLAAENGHLHV-LNRLCELAPTEIMAMIQAENYHAFRLAAENGHLHV 178
Query: 305 VQHLIEKCGADVNVTD--SDGDYGLDYAKAIE--HTDLIEYLVNSGS 347
+ L E ++ Y +A A+ H ++I +L++
Sbjct: 179 LNRLCEL-APTEATAMIQAENYYAFRWA-AVGRGHHNVINFLLDCPV 223
Score = 48.0 bits (114), Expect = 2e-06
Identities = 8/64 (12%), Positives = 19/64 (29%), Gaps = 4/64 (6%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ + L A G+ L+ + + +T ++ Y + DL
Sbjct: 311 PTATIPGDANELLRLALRLGNQGACALLLSI-PSVLALTKANNYY---INETGGRLDLRA 366
Query: 341 YLVN 344
+
Sbjct: 367 VALE 370
Score = 41.5 bits (97), Expect = 3e-04
Identities = 12/87 (13%), Positives = 25/87 (28%), Gaps = 11/87 (12%)
Query: 262 AKEGKLDMLVKQL-TKLKDFNINQLDENGLNCLHWAC-DRGHLKVVQHLIEKCGADVNVT 319
A+ G L + + +L + WA RGH V+ L++ +
Sbjct: 171 AENGHLHV-LNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDC-PVMLA-- 226
Query: 320 DSDGDYGLDYAKAIEHTDLIEYLVNSG 346
Y + + ++
Sbjct: 227 -----YAEIHEFEYGEKYVNPFIARHV 248
Score = 39.2 bits (91), Expect = 0.002
Identities = 11/71 (15%), Positives = 19/71 (26%), Gaps = 7/71 (9%)
Query: 283 NQLDENGLNCLHWACDRGH---LKVVQHLIE----KCGADVNVTDSDGDYGLDYAKAIEH 335
G L R L ++ L+ K A D + L A + +
Sbjct: 272 KSECLQGFYMLRNLIRRNDEVLLDDIRFLLSIPGIKALAPTATIPGDANELLRLALRLGN 331
Query: 336 TDLIEYLVNSG 346
L++
Sbjct: 332 QGACALLLSIP 342
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM,
splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo
sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Length = 437
Score = 63.7 bits (154), Expect = 2e-11
Identities = 14/97 (14%), Positives = 38/97 (39%), Gaps = 1/97 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVD-KVF 67
+FV + + + ++L++ F YG I +++ K +G +G+ F+ ++++ +
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 68 STDSHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDY 104
D ++G R+ +
Sbjct: 163 HADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGT 199
>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and
SOCS box-containing...; ASB9, ANK repeat, L-shaped,
structural protein; 2.20A {Homo sapiens}
Length = 285
Score = 62.9 bits (154), Expect = 2e-11
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 3/85 (3%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A G ++ L + + +N + + ++ LH AC GHL V+ L++ GA VN +
Sbjct: 67 AIHGHQLS-LRNLIS-QGWAVNIITADHVSPLHEACLGGHLSCVKILLKH-GAQVNGVTA 123
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
D L A D + L+ G
Sbjct: 124 DWHTPLFNACVSGSWDCVNLLLQHG 148
Score = 61.7 bits (151), Expect = 5e-11
Identities = 23/99 (23%), Positives = 33/99 (33%), Gaps = 10/99 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N G L VK L K +N + + L AC G V
Sbjct: 86 NIITADHVSPLHEACLGGHLSC-VKILLK-HGAQVNGVTADWHTPLFNACVSGSWDCVNL 143
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GA V +SD + A H + + L+ G
Sbjct: 144 LLQH-GASVQ-PESDLASPIHEAARRGHVECVNSLIAYG 180
Score = 59.4 bits (145), Expect = 3e-10
Identities = 22/85 (25%), Positives = 34/85 (40%), Gaps = 4/85 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A+ G ++ V L NI+ + L+ AC+ V+ L+E GADVN
Sbjct: 165 ARRGHVEC-VNSLIA-YGGNIDHKISHLGTPLYLACENQQRACVKKLLES-GADVN-QGK 220
Query: 322 DGDYGLDYAKAIEHTDLIEYLVNSG 346
D L +L L++ G
Sbjct: 221 GQDSPLHAVVRTASEELACLLMDFG 245
Score = 57.5 bits (140), Expect = 1e-09
Identities = 15/99 (15%), Positives = 35/99 (35%), Gaps = 11/99 (11%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ K + + + VK+L + ++NQ + + LH ++
Sbjct: 184 DHKISHLGTPLYLACENQQRAC-VKKLLE-SGADVNQ-GKGQDSPLHAVVRTASEELACL 240
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GAD +++G ++ +L G
Sbjct: 241 LMDF-GADTQAKNAEGKRPVELVPPESPLA-QLFLEREG 277
Score = 55.6 bits (135), Expect = 5e-09
Identities = 18/95 (18%), Positives = 33/95 (34%), Gaps = 4/95 (4%)
Query: 252 DDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK 311
D + + G D + + + +H A GH +++LI +
Sbjct: 25 DGKQGGMDGSKPAGPRD-FPGIRLLSNPLMGD--AVSDWSPMHEAAIHGHQLSLRNLISQ 81
Query: 312 CGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
G VN+ +D L A H ++ L+ G
Sbjct: 82 -GWAVNIITADHVSPLHEACLGGHLSCVKILLKHG 115
Score = 41.7 bits (99), Expect = 2e-04
Identities = 5/39 (12%), Positives = 12/39 (30%), Gaps = 2/39 (5%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVT 319
+ + G + L + +E+ GA +
Sbjct: 247 DTQAKNAEGKRPVELVPPESPLAQL--FLEREGASLPKP 283
Score = 38.2 bits (90), Expect = 0.002
Identities = 9/51 (17%), Positives = 16/51 (31%), Gaps = 2/51 (3%)
Query: 296 ACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
H L+ + G+ + D G+D +K D + S
Sbjct: 2 GSSHHHHHHSSGLVPR-GSHMASMDGKQG-GMDGSKPAGPRDFPGIRLLSN 50
>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 = 59.5 bits (144), Expect = 2e-11
Identities = 15/77 (19%), Positives = 29/77 (37%), Gaps = 2/77 (2%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNA-SVMFDKN-TGLSKGFGFVTFQNKEAVDKVFS 68
+ + LPW+ S +++ F S+ V F G G FV ++++ V
Sbjct: 20 VKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK 79
Query: 69 TDSHVLEGSRLSIQPSD 85
D + + + S
Sbjct: 80 KDRESMGHRYIEVFKSH 96
>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 = 61.6 bits (149), Expect = 2e-11
Identities = 11/81 (13%), Positives = 25/81 (30%), Gaps = 1/81 (1%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
+ N + N P V+ + E G SV G + + +K
Sbjct: 117 NRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKS 176
Query: 62 -AVDKVFSTDSHVLEGSRLSI 81
A++ + + + ++
Sbjct: 177 DALETLGFLNHYQMKNPNGPY 197
Score = 48.9 bits (116), Expect = 4e-07
Identities = 17/106 (16%), Positives = 38/106 (35%), Gaps = 7/106 (6%)
Query: 11 IFVGNL-PWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFST 69
+ V L ++ + + F YG + M K G V + AVD+ +
Sbjct: 7 LMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK-----PGAAMVEMADGYAVDRAITH 61
Query: 70 -DSHVLEGSRLSIQPSDSHNRMAENMEDRFNQACDYLPSLVKKLDS 114
+++ + G ++++ S M + +C Y + +
Sbjct: 62 LNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNR 107
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
ribonucleoprotein, R binding domain, RNA binding
protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
...
Length = 97
Score = 58.4 bits (142), Expect = 3e-11
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 12/91 (13%)
Query: 9 NKIFVGNLPWTVSHNELKK----FFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVD 64
+ I++ NL + +ELKK FS +GQI++ V + +G FV F+ +
Sbjct: 9 HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVS---RSLKMRGQAFVIFKEVSSAT 65
Query: 65 K-VFSTDSHVLEGSRLSIQ----PSDSHNRM 90
+ S + IQ SD +M
Sbjct: 66 NALRSMQGFPFYDKPMRIQYAKTDSDIIAKM 96
>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 = 59.5 bits (144), Expect = 4e-11
Identities = 23/92 (25%), Positives = 36/92 (39%), Gaps = 10/92 (10%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQI--MNASVMFD---KNTGLSKGFGFVTFQNKEAV 63
+I+V NL V +LK F Y +MFD G KG F+ N++A
Sbjct: 46 CRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAA 105
Query: 64 DK-VFSTDSHVLEGSRLSIQ----PSDSHNRM 90
K + + +VL G + +Q +
Sbjct: 106 AKALKEANGYVLFGKPMVVQFARSARPKQDPK 137
>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}
Length = 285
Score = 61.8 bits (151), Expect = 4e-11
Identities = 13/101 (12%), Positives = 30/101 (29%), Gaps = 12/101 (11%)
Query: 254 NEKNIYEW-------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
W + + V L + L+C+H GH+ ++
Sbjct: 122 MFYGKTGWKTSFYHAVMLNDVSI-VSYF--LSEIPSTFDLAILLSCIHITIKNGHVDMMI 178
Query: 307 HLIEKCGADVNVTDSDGD-YGLDYAKAIEHTDLIEYLVNSG 346
L++ N +S + A + ++++ L
Sbjct: 179 LLLDY-MTSTNTNNSLLFIPDIKLAIDNKDIEMLQALFKYD 218
Score = 61.8 bits (151), Expect = 4e-11
Identities = 16/86 (18%), Positives = 35/86 (40%), Gaps = 4/86 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A + VK L + +Q D+ G L++A D G+++ V+ ++K +
Sbjct: 70 ATLEDTKI-VKILLF-SGLDDSQFDDKGNTALYYAVDSGNMQTVKLFVKK-NWRLMFYGK 126
Query: 322 DGDY-GLDYAKAIEHTDLIEYLVNSG 346
G +A + ++ Y ++
Sbjct: 127 TGWKTSFYHAVMLNDVSIVSYFLSEI 152
Score = 58.7 bits (143), Expect = 5e-10
Identities = 17/76 (22%), Positives = 38/76 (50%), Gaps = 5/76 (6%)
Query: 271 VKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
+K L + + D +G + ++A ++++V L+ GA N+ + ++ L A
Sbjct: 15 LKSF--LSSKDTFKADVHGHSASYYAIADNNVRLVCTLLNA-GALKNLL--ENEFPLHQA 69
Query: 331 KAIEHTDLIEYLVNSG 346
+E T +++ L+ SG
Sbjct: 70 ATLEDTKIVKILLFSG 85
Score = 47.5 bits (114), Expect = 2e-06
Identities = 13/104 (12%), Positives = 28/104 (26%), Gaps = 21/104 (20%)
Query: 254 NEKNIYEW-------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQ 306
N N + ++M ++ L K D NI + ++ +
Sbjct: 188 NTNNSLLFIPDIKLAIDNKDIEM-LQALFK-YDINIY-------SANLENVLLDDAEIAK 238
Query: 307 HLIEKCGADVNVTDSDGD----YGLDYAKAIEHTDLIEYLVNSG 346
+IEK + D + I + + +
Sbjct: 239 MIIEK-HVEYKSDSYTKDLDIVKNNKLDEIISKNKELRLMYVNC 281
>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 = 61.8 bits (149), Expect = 5e-11
Identities = 24/107 (22%), Positives = 42/107 (39%), Gaps = 12/107 (11%)
Query: 4 SIRQLNKIFVGNLPWTVSHNELKK----FFSEYGQIMNASVMFDKNTGLSKGFGFVTFQN 59
R + I++ NL + +ELKK FS++GQI++ V + +G FV F+
Sbjct: 5 ETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVS---RSLKMRGQAFVIFKE 61
Query: 60 KEAVDKVFST-DSHVLEGSRLSIQ----PSDSHNRMAENMEDRFNQA 101
+ + + IQ SD +M +R +
Sbjct: 62 VSSATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERDRKR 108
Score = 45.6 bits (107), Expect = 9e-06
Identities = 10/62 (16%), Positives = 22/62 (35%), Gaps = 5/62 (8%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ + +F+ NLP + L F+++ ++ + FV F N+
Sbjct: 200 PLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----HDIAFVEFDNE 254
Query: 61 EA 62
Sbjct: 255 VQ 256
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 57.8 bits (140), Expect = 5e-11
Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 6/63 (9%)
Query: 9 NKIFVGNLP------WTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
I V P V L FS+ G+++N D+ TG +KGF FV +
Sbjct: 7 QYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMND 66
Query: 63 VDK 65
K
Sbjct: 67 AKK 69
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition
motif, RRM, RNA binding domain, RBD, RNP, structural
genomics; NMR {Mus musculus} SCOP: d.58.7.1
Length = 97
Score = 57.6 bits (140), Expect = 6e-11
Identities = 13/75 (17%), Positives = 28/75 (37%), Gaps = 7/75 (9%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE-AVDKVF 67
+++VG L S L + F +G I ++ K F ++ +++ + A
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSI--RTIDHVKG----DSFAYIQYESLDAAQAACA 71
Query: 68 STDSHVLEGSRLSIQ 82
L G ++
Sbjct: 72 KMRGFPLGGPDRRLR 86
>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat,
chromodomain, aromatic CAGE, signal recognit particle,
protein targeting; 3.18A {Arabidopsis thaliana} PDB:
1x3q_A 2hug_A
Length = 244
Score = 60.7 bits (148), Expect = 7e-11
Identities = 26/102 (25%), Positives = 40/102 (39%), Gaps = 10/102 (9%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLD-ENGLNCLHWACDRGHLKV 304
D + + A G V+ L + +++ D GL LH A +V
Sbjct: 69 DVDAVDENGRTALLFVAGLGSDKC-VRLLAE-AGADLDHRDMRGGLTALHMAAGYVRPEV 126
Query: 305 VQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
V+ L+E GAD+ V D G L+ A+ I T + G
Sbjct: 127 VEALVEL-GADIEVEDERGLTALELAREILKTTPKGNPMQFG 167
Score = 60.3 bits (147), Expect = 8e-11
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 5/86 (5%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
A++ + QL L+D +++ +DENG L + G K V+ L E GAD++ D
Sbjct: 53 ARKADEQA-LSQL--LEDRDVDAVDENGRTALLFVAGLGSDKCVRLLAEA-GADLDHRDM 108
Query: 322 -DGDYGLDYAKAIEHTDLIEYLVNSG 346
G L A +++E LV G
Sbjct: 109 RGGLTALHMAAGYVRPEVVEALVELG 134
Score = 50.7 bits (122), Expect = 2e-07
Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 2/54 (3%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
A + + + L+E DV+ D +G L + + + L +G
Sbjct: 49 WWTAARKADEQALSQLLE--DRDVDAVDENGRTALLFVAGLGSDKCVRLLAEAG 100
Score = 47.6 bits (114), Expect = 1e-06
Identities = 10/62 (16%), Positives = 23/62 (37%), Gaps = 4/62 (6%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+I DE GL L A + + ++ G + + + + E+ ++ E
Sbjct: 136 DIEVEDERGLTALELAREILKTTPKGNPMQF-GRRIGLEKVI---NVLEGQVFEYAEVDE 191
Query: 341 YL 342
+
Sbjct: 192 IV 193
Score = 38.7 bits (91), Expect = 0.002
Identities = 8/50 (16%), Positives = 15/50 (30%), Gaps = 3/50 (6%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
I + G + + + A+ D + GL+YA
Sbjct: 191 EIVEKRGKGKDVEYLVRWKDGGDCEWVKGVH-VAEDVA--KDYEDGLEYA 237
Score = 36.0 bits (84), Expect = 0.011
Identities = 9/64 (14%), Positives = 14/64 (21%), Gaps = 4/64 (6%)
Query: 279 DFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDL 338
++ G GH ADV S+ + A
Sbjct: 5 KIIGSRTAGEGAMEYLIEWKDGHSPSWVPSSYI-AADVV---SEYETPWWTAARKADEQA 60
Query: 339 IEYL 342
+ L
Sbjct: 61 LSQL 64
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 85
Score = 56.9 bits (138), Expect = 8e-11
Identities = 16/75 (21%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK--VF 67
++VG L T++ +L+ F ++G+I +V+ + F+ F ++A +
Sbjct: 14 TLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR------QQCAFIQFATRQAAEVAAEK 67
Query: 68 STDSHVLEGSRLSIQ 82
S + ++ G RL+++
Sbjct: 68 SFNKLIVNGRRLNVK 82
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 56.7 bits (137), Expect = 2e-10
Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 9/77 (11%)
Query: 9 NKIFVGNLPWTVS------HNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+ I V N+P N + K FS++G+I + + + G +KG+ F+ + +
Sbjct: 16 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKIT--NDFYPEEDGKTKGYIFLEYASPAH 73
Query: 63 VDK-VFSTDSHVLEGSR 78
V + D + L+
Sbjct: 74 AVDAVKNADGYKLDKQH 90
>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein
complex, transcription factors, nuclear localization,
DNA binding protein; 2.05A {Mus musculus} SCOP:
d.211.1.1 PDB: 1k3z_D
Length = 282
Score = 59.9 bits (146), Expect = 2e-10
Identities = 20/100 (20%), Positives = 33/100 (33%), Gaps = 10/100 (10%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDEN-GLNCLHWACDRGHLKVVQ 306
+N +M V+ L ++N+ + G LH A + V++
Sbjct: 152 EAENYDGHTPLHVAVIHKDAEM-VRLLRD-AGADLNKPEPTCGRTPLHLAVEAQAASVLE 209
Query: 307 HLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L++ GAD G L A + L L G
Sbjct: 210 LLLKA-GADPTARMYGGRTPLGSALLRPNPILARLLRAHG 248
Score = 59.5 bits (145), Expect = 2e-10
Identities = 9/62 (14%), Positives = 17/62 (27%), Gaps = 1/62 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+ G L A R + + + L GA D + + +D +
Sbjct: 217 DPTARMYGGRTPLGSALLRPNPILARLLRAH-GAPEPEDGGDKLSPCSSSGSDSDSDNRD 275
Query: 341 YL 342
Sbjct: 276 EG 277
Score = 57.6 bits (140), Expect = 1e-09
Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 6/69 (8%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYG---LDYAKAIEHTD 337
+ + +G LH A ++V+ L + GAD+N + G L A +
Sbjct: 150 QLEAENYDGHTPLHVAVIHKDAEMVRLLRDA-GADLNKP--EPTCGRTPLHLAVEAQAAS 206
Query: 338 LIEYLVNSG 346
++E L+ +G
Sbjct: 207 VLELLLKAG 215
Score = 56.0 bits (136), Expect = 3e-09
Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 1/66 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
++ ++ G LH A G V+ L GA V V + G L A +
Sbjct: 37 YLDLQNDLGQTALHLAAILGEASTVEKLYAA-GAGVLVAERGGHTALHLACRVRAHTCAC 95
Query: 341 YLVNSG 346
L+
Sbjct: 96 VLLQPR 101
Score = 52.5 bits (127), Expect = 5e-08
Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 4/68 (5%)
Query: 282 INQLDENGLNCLHWACDRGHLKVVQHLIEKCGAD---VNVTDSDGDYGLDYAKAIEHTDL 338
+ E+G LH A H + L+ A +++ + G L A +
Sbjct: 2 FGYVTEDGDTALHLAVIHQHEPFLDFLLGF-SAGHEYLDLQNDLGQTALHLAAILGEAST 60
Query: 339 IEYLVNSG 346
+E L +G
Sbjct: 61 VEKLYAAG 68
Score = 49.9 bits (120), Expect = 4e-07
Identities = 15/93 (16%), Positives = 24/93 (25%), Gaps = 11/93 (11%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ +N A G+ V++L + + G LH AC
Sbjct: 39 DLQNDLGQTALHLAAILGEAST-VEKLYA-AGAGVLVAERGGHTALHLACRVRAHTCACV 96
Query: 308 LIEKCGADVNVTDSDGDY--GLDYAKAIEHTDL 338
L++ SD D H
Sbjct: 97 LLQP-RPSHPRDASDTYLTQSQDCTPDTSHAPA 128
Score = 35.2 bits (82), Expect = 0.022
Identities = 3/63 (4%), Positives = 10/63 (15%), Gaps = 8/63 (12%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
+ + + L + + L+ +
Sbjct: 219 TARMYGGRTPLGSALLRPNPIL-ARLLRA-HGAPEPEDGGDKLSPCSSSGSDSDSDNRDE 276
Query: 308 LIE 310
E
Sbjct: 277 GDE 279
>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 = 56.9 bits (137), Expect = 2e-10
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 2/77 (2%)
Query: 10 KIFVGNLPWTVSHNELKKFFSEYGQIMNA-SVMFDKN-TGLSKGFGFVTFQNKEAVDKVF 67
+ + LPW+ S +++ F S+ A V F G G FV +++ V
Sbjct: 46 VVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMAL 105
Query: 68 STDSHVLEGSRLSIQPS 84
D + + + S
Sbjct: 106 KKDRESMGHRYIEVFKS 122
>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 = 56.0 bits (135), Expect = 2e-10
Identities = 14/102 (13%), Positives = 36/102 (35%), Gaps = 4/102 (3%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASV--MFDKNTGLSKGFGFVTFQ 58
+ + + I LPW+ + ++ FFS+ + G +G + +
Sbjct: 4 LEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEME 63
Query: 59 NKEAVDKVFSTDSHVLEGSRLSIQPSDSHNRMAENMEDRFNQ 100
+++ V K + G R ++ + +N + +
Sbjct: 64 SEQDVQKALEKHRMYM-GQRY-VEVYEINNEDVDALMKSLQV 103
>2bz2_A Negative elongation factor E; NELF E, RNA recognition motif,
alternative splicing, nuclear protein, phosphorylation,
repeat, repressor; NMR {Homo sapiens} SCOP: d.58.7.1
PDB: 2jx2_A
Length = 121
Score = 56.3 bits (136), Expect = 3e-10
Identities = 13/57 (22%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
N ++V ++ L+ FS +G I++ S+ + FVT++ E+ D+
Sbjct: 40 NTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPP------RNCAFVTYEKMESADQ 88
>1x5p_A Negative elongation factor E; structure genomics, RRM domain,
PARP14, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 97
Score = 55.0 bits (133), Expect = 5e-10
Identities = 17/80 (21%), Positives = 36/80 (45%), Gaps = 9/80 (11%)
Query: 1 MSNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNK 60
+ R+ N ++V ++ L+ FS +G I++ S+ + FVT++
Sbjct: 8 ERRAPRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD------PPRNCAFVTYEKM 59
Query: 61 EAVDK-VFSTDSHVLEGSRL 79
E+ D+ V + +E +L
Sbjct: 60 ESADQAVAELNGTQVESVQL 79
>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 = 57.3 bits (138), Expect = 9e-10
Identities = 19/80 (23%), Positives = 29/80 (36%), Gaps = 7/80 (8%)
Query: 11 IFVGNL-PWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VFS 68
+ V NL P V+ L F YG + ++F+K K V + +
Sbjct: 37 LLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSH 91
Query: 69 TDSHVLEGSRLSIQPSDSHN 88
+ H L G + I S N
Sbjct: 92 LNGHKLHGKPIRITLSKHQN 111
Score = 56.5 bits (136), Expect = 2e-09
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+ + N+P +VS +LK FS G ++ F K+ + + + E
Sbjct: 152 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RKMALIQMGSVEE 201
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural
genomics, RRM domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 104
Score = 54.4 bits (131), Expect = 9e-10
Identities = 14/79 (17%), Positives = 28/79 (35%), Gaps = 9/79 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV---F 67
+ V L +V +L + ++G I +M K V F+N ++ +
Sbjct: 18 VHVRGLCESVVEADLVEALEKFGTICYVMMMPFKR------QALVEFENIDSAKECVTFA 71
Query: 68 STDSHVLEGSRLSIQPSDS 86
+ + G + S S
Sbjct: 72 ADVPVYIAGQQAFFNYSTS 90
>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif,
systemic lupus erythematosus, phosphoprotein, RNA
maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1
PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A
Length = 193
Score = 56.8 bits (136), Expect = 9e-10
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
+++ P + +++K++ + GQ++N + + KG FV F + E+ K
Sbjct: 110 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFKGSIFVVFDSIESAKKFVE 168
Query: 69 TDSHVLEGSRLSIQPSD 85
T + + L I D
Sbjct: 169 TPGQKYKETDLLILFKD 185
>2etb_A Transient receptor potential cation channel subfamily V member 2;
TRPV2, ankyrin repeat domain, transport protein; 1.65A
{Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A
Length = 256
Score = 57.5 bits (139), Expect = 1e-09
Identities = 16/87 (18%), Positives = 30/87 (34%), Gaps = 14/87 (16%)
Query: 274 LTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAI 333
L + G + LH A ++ L+ V+ L+E GADV++ +
Sbjct: 75 PKPLVNAQCTDEFYQGHSALHIAIEKRSLQCVKLLVEN-GADVHLRACGRFFQKHQGTCF 133
Query: 334 E-------------HTDLIEYLVNSGS 347
D++ YL+ +
Sbjct: 134 YFGELPLSLAACTKQWDVVTYLLENPH 160
Score = 50.6 bits (121), Expect = 2e-07
Identities = 17/112 (15%), Positives = 29/112 (25%), Gaps = 19/112 (16%)
Query: 254 NEKNIYEWAKEGKLDMLVKQLTKLK------DFNINQLDENGLNCLHWA---CDRGHLKV 304
+ ++ G + L L L+ + G CL A G
Sbjct: 2 DRDRLFSVVSRGVPEELTGLLEYLRWNSKYLTDSAYTEGSTGKTCLMKAVLNLQDGVNAC 61
Query: 305 VQHLIEKC----------GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+ L++ A G L A ++ LV +G
Sbjct: 62 IMPLLQIDKDSGNPKPLVNAQCTDEFYQGHSALHIAIEKRSLQCVKLLVENG 113
Score = 48.6 bits (116), Expect = 1e-06
Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 3/64 (4%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS 321
+G L M +L + GL L A G +++ +H++++
Sbjct: 196 MYDGLLQM-GARLCP-TVQLEEISNHQGLTPLKLAAKEGKIEIFRHILQR-EFSGAAAHH 252
Query: 322 DGDY 325
+
Sbjct: 253 HHHH 256
Score = 48.2 bits (115), Expect = 1e-06
Identities = 7/65 (10%), Positives = 20/65 (30%), Gaps = 1/65 (1%)
Query: 282 INQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEY 341
+ + + L G L++ L +++ G L A ++ +
Sbjct: 181 MIADNSPENSALVIHMYDGLLQMGARLCPT-VQLEEISNHQGLTPLKLAAKEGKIEIFRH 239
Query: 342 LVNSG 346
++
Sbjct: 240 ILQRE 244
Score = 44.4 bits (105), Expect = 2e-05
Identities = 17/107 (15%), Positives = 29/107 (27%), Gaps = 23/107 (21%)
Query: 252 DDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNC------------- 292
++ ++ L VK L + +++
Sbjct: 82 QCTDEFYQGHSALHIAIEKRSLQC-VKLLVE-NGADVHLRACGRFFQKHQGTCFYFGELP 139
Query: 293 LHWACDRGHLKVVQHLIEK--CGADVNVTDSDGDYGLDYAKAIEHTD 337
L A VV +L+E A + TDS G+ L I
Sbjct: 140 LSLAACTKQWDVVTYLLENPHQPASLEATDSLGNTVLHALVMIADNS 186
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 54.0 bits (130), Expect = 1e-09
Identities = 14/79 (17%), Positives = 25/79 (31%), Gaps = 9/79 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV---F 67
+ + L V +L + E+G I VM K V F++
Sbjct: 24 VHIRGLIDGVVEADLVEALQEFGPISYVVVMP------KKRQALVEFEDVLGACNAVNYA 77
Query: 68 STDSHVLEGSRLSIQPSDS 86
+ + + G + S S
Sbjct: 78 ADNQIYIAGHPAFVNYSTS 96
>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats,
cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP:
d.211.1.1
Length = 327
Score = 57.7 bits (139), Expect = 1e-09
Identities = 19/96 (19%), Positives = 39/96 (40%), Gaps = 3/96 (3%)
Query: 241 VSSMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDF--NINQLDENGLNCLHWACD 298
V + +++ + D +++ L +N D NG CL+ A
Sbjct: 233 VKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQDSNGDTCLNIAAR 292
Query: 299 RGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIE 334
G++ +V L++ GAD + + G +D+ +E
Sbjct: 293 LGNISIVDALLDY-GADPFIANKSGLRPVDFGAGLE 327
Score = 56.2 bits (135), Expect = 4e-09
Identities = 21/85 (24%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 243 SMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKL---KDFNIN-QLDENGLNCLHWACD 298
S+ ND S + + + + D L++++ N+N +DE+G LHW
Sbjct: 81 SLNNDSSNRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTS 140
Query: 299 RGHLKVVQHLIEKCGADVNVTDSDG 323
+L++V+HL++ G++ D+ G
Sbjct: 141 IANLELVKHLVKH-GSNRLYGDNMG 164
Score = 43.5 bits (102), Expect = 6e-05
Identities = 21/116 (18%), Positives = 44/116 (37%), Gaps = 6/116 (5%)
Query: 212 DKEQEEINWDESQESGSKENEGQTKGWVNVSSMINDESQLDDNEKNIYEWA-KEGKLDML 270
++ E + ++ Q+ S ++ Q ++ +N +D++ W L++
Sbjct: 88 NRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANLEL- 146
Query: 271 VKQLTKLKDFNINQLDENGLNCLHWACDRGH---LKVVQHLIEKCGADVNVTDSDG 323
VK L K N D G +CL A + + L++ + + DS
Sbjct: 147 VKHLVKHGS-NRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMN 201
Score = 35.8 bits (82), Expect = 0.015
Identities = 11/87 (12%), Positives = 22/87 (25%), Gaps = 11/87 (12%)
Query: 271 VKQLTKLKDFNINQLDENGLNCLHWACD-----------RGHLKVVQHLIEKCGADVNVT 319
+ L + D LH + +L ++ I K +
Sbjct: 183 FEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQS 242
Query: 320 DSDGDYGLDYAKAIEHTDLIEYLVNSG 346
++ K E D I ++
Sbjct: 243 GTNEKESKPNDKNGERKDSILENLDLK 269
Score = 33.8 bits (77), Expect = 0.067
Identities = 17/87 (19%), Positives = 39/87 (44%), Gaps = 2/87 (2%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK--CGADVNVT 319
A + LD+L+ + K ++ I + + ++++L K +N
Sbjct: 220 AAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQ 279
Query: 320 DSDGDYGLDYAKAIEHTDLIEYLVNSG 346
DS+GD L+ A + + +++ L++ G
Sbjct: 280 DSNGDTCLNIAARLGNISIVDALLDYG 306
Score = 30.0 bits (67), Expect = 1.1
Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 1/70 (1%)
Query: 278 KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNV-TDSDGDYGLDYAKAIEHT 336
N N + L+ V ++N+ D G+ L + +I +
Sbjct: 85 DSSNRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANL 144
Query: 337 DLIEYLVNSG 346
+L+++LV G
Sbjct: 145 ELVKHLVKHG 154
>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6
ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A
2dwz_A* 1tr4_A 1uoh_A 1qym_A
Length = 231
Score = 56.8 bits (137), Expect = 1e-09
Identities = 26/95 (27%), Positives = 45/95 (47%), Gaps = 2/95 (2%)
Query: 253 DNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKC 312
+ I A GKLD L +++ + D++ LHWAC GH ++V+ L++
Sbjct: 5 VSNIMICNLAYSGKLDELKERILA-DKSLATRTDQDSRTALHWACSAGHTEIVEFLLQL- 62
Query: 313 GADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
G VN D G L A + ++++ L+ G+
Sbjct: 63 GVPVNDKDDAGWSPLHIAASAGXDEIVKALLVKGA 97
Score = 52.2 bits (125), Expect = 4e-08
Identities = 20/100 (20%), Positives = 45/100 (45%), Gaps = 9/100 (9%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQH 307
N+K+ W A G +++ + +K ++N +++NG LH+A + ++
Sbjct: 67 NDKDDAGWSPLHIAASAGXDEIV--KALLVKGAHVNAVNQNGCTPLHYAASKNRHEIAVM 124
Query: 308 LIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
L+E GA+ + D + A A + ++ L+ +
Sbjct: 125 LLEG-GANPDAKDHYDATAMHRAAAKGNLKMVHILLFYKA 163
Score = 49.9 bits (119), Expect = 3e-07
Identities = 22/106 (20%), Positives = 43/106 (40%), Gaps = 5/106 (4%)
Query: 241 VSSMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRG 300
+ N +++ + ++ A +G L M+ + + N D G LH ACD
Sbjct: 126 LEGGANPDAKDHYDATAMHRAAAKGNLKMV--HILLFYKASTNIQDTEGNTPLHLACDEE 183
Query: 301 HLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
++ + L+ + GA + + + + L AK LI + G
Sbjct: 184 RVEEAKFLVTQ-GASIYIENKEEKTPLQVAK--GGLGLILKRLAEG 226
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 54.5 bits (131), Expect = 1e-09
Identities = 13/79 (16%), Positives = 30/79 (37%), Gaps = 8/79 (10%)
Query: 9 NKIFVGNLPWTVSHNELKK----FFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVD 64
+ + N+ V +L+ S G I++ V + + G ++ F +E+
Sbjct: 30 QVVLITNINPEVPKEKLQALLYALASSQGDILDIVVD---LSDDNSGKAYIVFATQESAQ 86
Query: 65 KVF-STDSHVLEGSRLSIQ 82
+ + +G+ L I
Sbjct: 87 AFVEAFQGYPFQGNPLVIT 105
>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 = 56.1 bits (135), Expect = 2e-09
Identities = 19/84 (22%), Positives = 29/84 (34%), Gaps = 7/84 (8%)
Query: 11 IFVGNL-PWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK-VFS 68
+ V NL P V+ L F YG + ++F+K K V + +
Sbjct: 6 LLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSH 60
Query: 69 TDSHVLEGSRLSIQPSDSHNRMAE 92
+ H L G + I S N
Sbjct: 61 LNGHKLHGKPIRITLSKHQNVQLP 84
Score = 54.5 bits (131), Expect = 5e-09
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 9 NKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+ + N+P +VS +LK FS G ++ F K+ + + + E
Sbjct: 121 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RKMALIQMGSVEE 170
>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1,
ankyrin repeat domain, transport protein; HET: ATP;
2.70A {Rattus norvegicus} PDB: 2nyj_A*
Length = 273
Score = 56.3 bits (136), Expect = 2e-09
Identities = 14/91 (15%), Positives = 31/91 (34%), Gaps = 15/91 (16%)
Query: 271 VKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYA 330
L + + + G LH A +R ++ +V L+E GADV + +
Sbjct: 83 TDSLKQFVNASYTDSYYKGQTALHIAIERRNMTLVTLLVEN-GADVQAAANGDFFKKTKG 141
Query: 331 KAIE--------------HTDLIEYLVNSGS 347
+ ++++L+ +
Sbjct: 142 RPGFYFGELPLSLAACTNQLAIVKFLLQNSW 172
Score = 44.0 bits (104), Expect = 3e-05
Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 293 LHWACDRGHLKVVQHLIEK--CGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
L A L +V+ L++ AD++ DS G+ L + +
Sbjct: 152 LSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTK 203
Score = 44.0 bits (104), Expect = 3e-05
Identities = 8/66 (12%), Positives = 24/66 (36%), Gaps = 2/66 (3%)
Query: 252 DDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEK 311
+ + + + ++ +L +L + GL L A G + V+ +++++
Sbjct: 197 NTVDNTKFVTSMYNEILILGAKLHP-TLKLEEITNRKGLTPLALAASSGKIGVLAYILQR 255
Query: 312 CGADVN 317
Sbjct: 256 -EIHEP 260
Score = 37.8 bits (88), Expect = 0.003
Identities = 11/78 (14%), Positives = 21/78 (26%), Gaps = 14/78 (17%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIE------KCGADVNVTDSDGDYG---LDYAK 331
+ A + + + ++ L+ K D D + G L A
Sbjct: 5 GEKPPRLYDRRSIFDAVAQSNCQELESLLPFLQRSKKRLTDSEF--KDPETGKTCLLKAM 62
Query: 332 AIE---HTDLIEYLVNSG 346
D I L++
Sbjct: 63 LNLHNGQNDTIALLLDVA 80
Score = 37.1 bits (86), Expect = 0.005
Identities = 17/103 (16%), Positives = 32/103 (31%), Gaps = 20/103 (19%)
Query: 262 AKEGKLDMLVKQLTK--LKDFNINQLDENGLNCLHWACDRGHLKVVQ---------HLIE 310
A +L + VK L + + +I+ D G LH + V ++
Sbjct: 156 ACTNQLAI-VKFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTKFVTSMYNEILI 214
Query: 311 KC------GADVNVTDSDGDYGLDYAKAIE-HTDLIEYLVNSG 346
+T+ G L A A ++ Y++
Sbjct: 215 LGAKLHPTLKLEEITNRKGLTPLALA-ASSGKIGVLAYILQRE 256
Score = 28.6 bits (64), Expect = 2.7
Identities = 8/61 (13%), Positives = 18/61 (29%), Gaps = 15/61 (24%)
Query: 247 DESQLDDNEKNIYEW------AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRG 300
+ + N A GK+ + + + + + + + C H A
Sbjct: 220 HPTLKLEEITNRKGLTPLALAASSGKIGV-LAYI-------LQR-EIHEPECRHAAAHHH 270
Query: 301 H 301
H
Sbjct: 271 H 271
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 119
Score = 53.0 bits (127), Expect = 4e-09
Identities = 18/79 (22%), Positives = 36/79 (45%), Gaps = 9/79 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV---F 67
I + LP V+ E+ +G++ N ++ KN F+ +EA + + +
Sbjct: 34 IHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKN------QAFIEMNTEEAANTMVNYY 87
Query: 68 STDSHVLEGSRLSIQPSDS 86
++ + VL G + IQ S+
Sbjct: 88 TSVTPVLRGQPIYIQFSNH 106
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 52.2 bits (125), Expect = 6e-09
Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 9/79 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV---F 67
I + LP V+ E+ +G++ N ++ K F+ +EA + + +
Sbjct: 19 IHIRKLPIDVTEGEVISLGLPFGKVTNLLML------KGKNQAFIEMNTEEAANTMVNYY 72
Query: 68 STDSHVLEGSRLSIQPSDS 86
++ + VL G + IQ S+
Sbjct: 73 TSVTPVLRGQPIYIQFSNH 91
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition
motif, RRM, RNA binding domain, RBD, RNP, structural
genomics; NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 52.1 bits (125), Expect = 7e-09
Identities = 18/82 (21%), Positives = 27/82 (32%), Gaps = 10/82 (12%)
Query: 2 SNSIRQLNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
+S R I NLP E+++ FS +G + V+ + V F
Sbjct: 4 GSSGRSKTVILAKNLPAGTLAAEIQETFSRFGSL--GRVLLPE----GGITAIVEFLEPL 57
Query: 62 AVDKVFSTDSHVLEGSRLSIQP 83
K F L S+ P
Sbjct: 58 EARKAFRH----LAYSKFHHVP 75
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 50.5 bits (121), Expect = 1e-08
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 9/77 (11%)
Query: 9 NKIFVGNLPWTVS------HNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE- 61
+ I V N+P N + K FS++G+I + + + G +KG+ F+ + +
Sbjct: 2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKIT--NDFYPEEDGKTKGYIFLEYASPAH 59
Query: 62 AVDKVFSTDSHVLEGSR 78
AVD V + D + L+
Sbjct: 60 AVDAVKNADGYKLDKQH 76
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 101
Score = 51.0 bits (122), Expect = 2e-08
Identities = 15/77 (19%), Positives = 30/77 (38%), Gaps = 9/77 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV---F 67
+ + LP V+ E+ +G++ N ++ K F+ +EA + +
Sbjct: 18 LHIRKLPGEVTETEVIALGLPFGKVTNILML------KGKNQAFLELATEEAAITMVNYY 71
Query: 68 STDSHVLEGSRLSIQPS 84
S + L + IQ S
Sbjct: 72 SAVTPHLRNQPIYIQYS 88
>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6,
ankyrin reapeat, ANK RE calcium channel, calcium
transport, calmodulin-binding; 1.70A {Mus musculus}
Length = 232
Score = 52.6 bits (127), Expect = 3e-08
Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 7/90 (7%)
Query: 262 AKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADV----- 316
AKE + L K L K + ++Q G LH A +L+ L+E ++
Sbjct: 11 AKENDVQALSKLL-KFEGCEVHQRGAMGETALHIAALYDNLEAAMVLMEA-APELVFEPM 68
Query: 317 NVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
+G L A ++ +L+ L+ G
Sbjct: 69 TSELYEGQTALHIAVINQNVNLVRALLARG 98
Score = 49.5 bits (119), Expect = 4e-07
Identities = 11/85 (12%), Positives = 23/85 (27%), Gaps = 17/85 (20%)
Query: 254 NEKNIYEW------AKEGKLDMLVKQLTKL---KDFNIN------QLDENGLNCLHWACD 298
++ + Q+ L D + + GL A
Sbjct: 148 RAQDSLGNTVLHILILQPNKTF-ACQMYNLLLSYDGGDHLKSLELVPNNQGLTPFKLAGV 206
Query: 299 RGHLKVVQHLIEKCGADVNVTDSDG 323
G++ + QHL++K +
Sbjct: 207 EGNIVMFQHLMQK-RKHIAAAHHHH 230
Score = 45.3 bits (108), Expect = 1e-05
Identities = 9/75 (12%), Positives = 21/75 (28%), Gaps = 9/75 (12%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIE---KCGADVN------VTDSDGDYGLDYAK 331
+I D G LH + + + + V ++ G A
Sbjct: 146 DIRAQDSLGNTVLHILILQPNKTFACQMYNLLLSYDGGDHLKSLELVPNNQGLTPFKLAG 205
Query: 332 AIEHTDLIEYLVNSG 346
+ + ++L+
Sbjct: 206 VEGNIVMFQHLMQKR 220
Score = 44.9 bits (107), Expect = 1e-05
Identities = 19/122 (15%), Positives = 39/122 (31%), Gaps = 24/122 (19%)
Query: 247 DESQLDDNEKNIYEW------AKEGKLDMLVKQL------------TKLKDFNINQLDEN 288
+ + +++ V+ L + + + L
Sbjct: 62 ELVFEPMTSELYEGQTALHIAVINQNVNL-VRALLARGASVSARATGSVFHYRPHNLIYY 120
Query: 289 GLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTD----LIEYLVN 344
G + L +A G ++V+ LIE GAD+ DS G+ L + + L++
Sbjct: 121 GEHPLSFAACVGSEEIVRLLIEH-GADIRAQDSLGNTVLHILILQPNKTFACQMYNLLLS 179
Query: 345 SG 346
Sbjct: 180 YD 181
Score = 44.1 bits (105), Expect = 2e-05
Identities = 9/54 (16%), Positives = 23/54 (42%)
Query: 293 LHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSG 346
L A ++ + L++ G +V+ + G+ L A ++ + L+ +
Sbjct: 7 LLLAAKENDVQALSKLLKFEGCEVHQRGAMGETALHIAALYDNLEAAMVLMEAA 60
>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium,
SGC, metal binding protein; 2.06A {Homo sapiens}
Length = 301
Score = 52.7 bits (126), Expect = 5e-08
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 1/65 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
+++ +G LH+A ++ L+ K A V + G+ LD A+ H + E
Sbjct: 218 HLDAKAADGNTALHYAALYNQPDCLKLLL-KGRALVGTVNEAGETALDIARKKHHKECEE 276
Query: 341 YLVNS 345
L +
Sbjct: 277 LLEQA 281
Score = 39.2 bits (91), Expect = 0.001
Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 4/65 (6%)
Query: 286 DENGLNCLHWAC---DRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYL 342
LH A ++ L +V +I+ G ++ +DG+ L YA D ++ L
Sbjct: 187 QAPEELVLHLAVKVANQASLPLVDFIIQ-NGGHLDAKAADGNTALHYAALYNQPDCLKLL 245
Query: 343 VNSGS 347
+ +
Sbjct: 246 LKGRA 250
>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats,
metal binding protein; 2.10A {Mus musculus} SCOP:
d.211.1.1 g.45.1.1
Length = 278
Score = 51.5 bits (123), Expect = 1e-07
Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+++ G LH+ C + + ++ L+ + A + + + G+ LD AK ++H E
Sbjct: 197 NLDKQTGKGSTALHYCCLTDNAECLKLLL-RGKASIEIANESGETPLDIAKRLKHEHCEE 255
Query: 341 YLVNS 345
L +
Sbjct: 256 LLTQA 260
Score = 42.3 bits (99), Expect = 1e-04
Identities = 24/171 (14%), Positives = 54/171 (31%), Gaps = 16/171 (9%)
Query: 188 DWKPNQKAMSKYI--ALLNEVDASWEDKEQEEINWDESQESGSKENEG------QTKGWV 239
++ ++K I A NE+ E E + S + + +
Sbjct: 64 VLGTSELLLAKNIGNAGFNEI---MECCLPSEDPVKPNPGSDMIARKDYITAKYMERRYA 120
Query: 240 NVSSMINDESQLDDNEKNIYEWAKEGKLDMLVKQLTKLKDFNINQLDENGLNCLHWAC-- 297
+ ++L + + G L + + + E LH A
Sbjct: 121 R-KKHADTAAKLHSLCEAVKTRDIFGLLQAYADGVDLTEKIPLANGHEPDETALHLAVRS 179
Query: 298 -DRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIEYLVNSGS 347
DR L +V L++ +++ G L Y ++ + ++ L+ +
Sbjct: 180 VDRTSLHIVDFLVQN-SGNLDKQTGKGSTALHYCCLTDNAECLKLLLRGKA 229
>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin
repeats, ANK repeat, ION transport, ionic channel, R
transmembrane, transport; 2.30A {Gallus gallus} PDB:
3jxj_A
Length = 260
Score = 50.2 bits (120), Expect = 2e-07
Identities = 19/90 (21%), Positives = 31/90 (34%), Gaps = 15/90 (16%)
Query: 272 KQLTKLKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS---------- 321
+ + + + G LH A +R V+ L+EK GADV+
Sbjct: 76 GNMREFINSPFRDVYYRGQTALHIAIERRCKHYVELLVEK-GADVHAQARGRFFQPKDEG 134
Query: 322 ----DGDYGLDYAKAIEHTDLIEYLVNSGS 347
G+ L A ++ YL +G
Sbjct: 135 GYFYFGELPLSLAACTNQPHIVHYLTENGH 164
Score = 42.8 bits (101), Expect = 6e-05
Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 278 KDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDY 325
L+ +GL+ L A G + + QH+I + +
Sbjct: 214 DTNLEALLNNDGLSPLMMAAKTGKIGIFQHIIRR-EIADAAAHHHHHH 260
Score = 42.5 bits (100), Expect = 9e-05
Identities = 14/57 (24%), Positives = 19/57 (33%), Gaps = 2/57 (3%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEK--CGADVNVTDSDGDYGLDYAKAIEH 335
+ G L A +V +L E AD+ DS G+ L AI
Sbjct: 132 DEGGYFYFGELPLSLAACTNQPHIVHYLTENGHKQADLRRQDSRGNTVLHALVAIAD 188
Score = 32.4 bits (74), Expect = 0.14
Identities = 12/77 (15%), Positives = 24/77 (31%), Gaps = 12/77 (15%)
Query: 277 LKDFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDS-DGDYG---LDYA-- 330
+K FN L + + G ++ L+ + + + G L A
Sbjct: 1 MKVFNRPIL----FDIVSRGSPDGLEGLLSFLLTH-KKRLTDEEFREPSTGKTCLPKALL 55
Query: 331 -KAIEHTDLIEYLVNSG 346
+ D I L++
Sbjct: 56 NLSAGRNDTIPILLDIA 72
>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing
protein 1; arfgap domain, zinc-binding module, GTPase
activ metal-binding, nitration; 2.30A {Homo sapiens}
Length = 368
Score = 50.9 bits (121), Expect = 2e-07
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 281 NINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDLIE 340
N+NQ D G LH A GH + + K GAD+ DS+G L A + D++
Sbjct: 260 NVNQADSAGRGPLHHATILGHTGLACLFL-KRGADLGARDSEGRDPLTIAMETANADIVT 318
Query: 341 YLV 343
L
Sbjct: 319 LLR 321
Score = 45.2 bits (106), Expect = 2e-05
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 1/68 (1%)
Query: 279 DFNINQLDENGLNCLHWACDRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTDL 338
D N ++ L A L + L++ GA+VN DS G L +A + HT L
Sbjct: 225 DVNWVNGGQDNATPLIQATAANSLLACEFLLQN-GANVNQADSAGRGPLHHATILGHTGL 283
Query: 339 IEYLVNSG 346
+ G
Sbjct: 284 ACLFLKRG 291
>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
Length = 112
Score = 47.2 bits (112), Expect = 3e-07
Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 10/81 (12%)
Query: 11 IFVGNLPW-TVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV--- 66
I + NLP S + + K YG+I N +M K+ F+ + +E +
Sbjct: 28 IHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKS------QAFIEMETREDAMAMVDH 81
Query: 67 FSTDSHVLEGSRLSIQPSDSH 87
+ +G + + S+ +
Sbjct: 82 CLKKALWFQGRCVKVDLSEKY 102
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 46.8 bits (111), Expect = 5e-07
Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+ G L VS N+L + G + +++ N K + F ++ E
Sbjct: 30 VANGGLGNGVSRNQLLPVLEKCGLVD--ALLMPPN----KPYSFARYRTTEE 75
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 42.2 bits (98), Expect = 5e-05
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 8/27 (29%)
Query: 109 VKKLDSSTLLKFY------ALYKQATV 129
+KKL +S LK Y AL +AT+
Sbjct: 22 LKKLQAS--LKLYADDSAPALAIKATM 46
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 41.8 bits (98), Expect = 2e-04
Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 4/69 (5%)
Query: 281 NINQLDENGLNCLHWAC---DRGHLKVVQHLIEKCGADVNVTDSDGDYGLDYAKAIEHTD 337
LH A ++ L +V +I+ G ++ +DG+ L YA D
Sbjct: 163 PGPDAQAPEELVLHLAVKVANQASLPLVDFIIQN-GGHLDAKAADGNTALHYAALYNQPD 221
Query: 338 LIEYLVNSG 346
++ L+
Sbjct: 222 CLKLLLKGR 230
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif,
RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1
PDB: 2adb_A
Length = 164
Score = 40.1 bits (93), Expect = 3e-04
Identities = 12/55 (21%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDK 65
I V NL + V+ + L + FS++G ++ + F KN + + + +
Sbjct: 49 IIVENLFYPVTLDVLHQIFSKFGTVLK-IITFTKNNQFQ---ALLQYADPVSAQH 99
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 38.9 bits (90), Expect = 5e-04
Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
I V NL + V+ + L + FS++G ++ + F KN + + + +
Sbjct: 31 IIVENLFYPVTLDVLHQIFSKFGTVLK-IITFTKNNQFQ---ALLQYADPVS 78
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 39.3 bits (91), Expect = 0.002
Identities = 54/299 (18%), Positives = 93/299 (31%), Gaps = 112/299 (37%)
Query: 49 SKGFGFVTFQNKEAVDKVFST-DSHVLEGSRLSIQPSDSHN--------------RMAEN 93
+G G ++ +A V++ D+H + SI +N R+ EN
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 94 ----MEDRFNQACDYLPSLVKKLD-SSTLLKFYA----LYK-QATVGQCNIDKP------ 137
+ + + K+++ ST F + L Q T Q P
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT--Q-----PALTLME 1740
Query: 138 --SWYNMEAK-----SKYNAWNSLGQMAKSEAMSKYIALLKEV-DAG---WED------- 179
++ ++++K A +SLG E Y AL A E
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLG-----E----YAAL---ASLADVMSIESLVEVVFY 1788
Query: 180 ---KEQEEINWDWKPNQKAMSKY-IALLN--EVDASWEDKEQEEINWDESQESGSKENEG 233
Q + D + S Y + +N V AS+ + + + E G
Sbjct: 1789 RGMTMQVAVPRD----ELGRSNYGMIAINPGRVAASFSQEALQYVV----------ERVG 1834
Query: 234 QTKGW----VNVSSMINDESQLDDNEKN----IYEWAKEGK-LDMLVKQLTKLKDFNIN 283
+ GW VN N +N A + + LD + L +K I+
Sbjct: 1835 KRTGWLVEIVN------------YNVENQQYVA---AGDLRALDTVTNVLNFIKLQKID 1878
Score = 30.4 bits (68), Expect = 1.0
Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 20/87 (22%)
Query: 1 MSNSIRQ--LNKIFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQ 58
+S SI + ++ I + W + A+ + D G + G G +T +
Sbjct: 471 LSGSISERIVDCIIRLPVKWETTTQ------------FKATHILDFGPGGASGLGVLTHR 518
Query: 59 NKEAVDKVFSTDSHVLEGSRLSIQPSD 85
NK+ T V+ L I P D
Sbjct: 519 NKDG------TGVRVIVAGTLDINPDD 539
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 35.5 bits (81), Expect = 0.015
Identities = 12/61 (19%), Positives = 23/61 (37%), Gaps = 15/61 (24%)
Query: 11 IFVGNLPWTVSH---------NELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKE 61
++VG + ++ + ++ FS G I + SK GFV F+ +
Sbjct: 137 LYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE------SKNCGFVKFKYQA 190
Query: 62 A 62
Sbjct: 191 N 191
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 32.7 bits (74), Expect = 0.055
Identities = 8/52 (15%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 11 IFVGNLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEA 62
+ + N + ++ + L + G++ V+F +N V F++
Sbjct: 28 LSIQNPLYPITVDVLYTVCNPVGKVQR-IVIFKRN----GIQAMVEFESVLC 74
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 34.1 bits (77), Expect = 0.068
Identities = 29/188 (15%), Positives = 68/188 (36%), Gaps = 40/188 (21%)
Query: 57 FQNKEAVDKVFSTDSHVLEGSRLSIQPSDS-----HNRMAENMEDRFNQACDYLPSLVKK 111
V+K + + L ++ H + ++ Y ++ K
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH----------Y--NIPKT 458
Query: 112 LDSSTLLK--------FYALY--KQATVGQCNIDKPSWY-N---MEAKSKYN--AWNSLG 155
DS L+ + + K + + + +E K +++ AWN+ G
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518
Query: 156 QMAKS-EAMSKYIALLKEVDAGWEDKEQEEINWDWKPNQKAM-SKY-----IALLNEVDA 208
+ + + + Y + + D +E +++ K + + SKY IAL+ E +A
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA 578
Query: 209 SWEDKEQE 216
+E+ ++
Sbjct: 579 IFEEAHKQ 586
>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
Length = 96
Score = 30.3 bits (68), Expect = 0.26
Identities = 12/78 (15%), Positives = 35/78 (44%), Gaps = 8/78 (10%)
Query: 10 KIFVGNLPWTVSHNELKKF----FSEYGQIMNASVMFDKNTGLSKGFGFVTFQN-KEAVD 64
+ V N+ + +S EL++ F+ +G++ + + + + V +N ++A+
Sbjct: 11 DVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTD---YQLKAVVQMENLQDAIG 67
Query: 65 KVFSTDSHVLEGSRLSIQ 82
V S + + ++ +
Sbjct: 68 AVNSLHRYKIGSKKILVS 85
>2hkv_A Hypothetical protein; putative member of the DINB family,
structural genomics, JOI for structural genomics, JCSG;
1.70A {Exiguobacterium sibiricum} SCOP: a.213.1.2
Length = 149
Score = 28.5 bits (63), Expect = 2.2
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 6/50 (12%)
Query: 183 EEINWDWKPNQKAMS-----KYIALLNEVDA-SWEDKEQEEINWDESQES 226
+ +WD +P S ++A+L E D +E+ +
Sbjct: 28 QPEDWDKRPISGKRSVYEVAVHLAVLLEADLRIATGATADEMAQFYAVPV 77
>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 100
Score = 27.8 bits (61), Expect = 2.2
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 21 SHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFS 68
S + L + +YG+++N V+ K G V F +A +
Sbjct: 30 SKDVLLRLLQKYGEVLNL-VLSSKK----PGTAVVEFATVKAAELAVQ 72
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA
binding domain, poly(A polymerase, mitochondria,
transferase; 3.10A {Homo sapiens}
Length = 464
Score = 29.0 bits (64), Expect = 2.3
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 15 NLPWTVSHNELKKFFSEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKV 66
+ P +S N+ K+ S++G I N F ++ GL + V F KE++ +
Sbjct: 59 HCPEKISENKFLKYLSQFGPINN--HFFYESFGL---YAVVEFCQKESIGSL 105
>2dk3_A E3 ubiquitin-protein ligase hectd1; MIB-HERC2 domain, HECT domain
containing protein 1, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: b.34.19.1
Length = 86
Score = 26.8 bits (59), Expect = 3.3
Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 13/63 (20%)
Query: 219 NWDESQESGSKENEGQ-----TKGWVNVSSMINDESQLDDNEKNIYEWAKEGKLDMLVKQ 273
+W + GS + EG GW++V D N Y EGK D+ +
Sbjct: 27 DWKWRDQDGSPQGEGTVTGELHNGWIDV--------TWDAGGSNSYRMGAEGKFDLKLAP 78
Query: 274 LTK 276
Sbjct: 79 GYS 81
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 28.2 bits (64), Expect = 4.6
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 303 KVVQHLIEKCGADVNVTDSDGD---YGLDYAKAIEHTDLIEYLVN 344
V++ L E+ G + + D DG D KA IE +
Sbjct: 580 SVIRALTEETGTTIEIED-DGTVKIAATDGEKAKHAIRRIEEITA 623
>3dkm_A E3 ubiquitin-protein ligase hectd1; UBL conjugation, UBL
conjugation pathway, structural genomics consortium,
SGC;, ANK repeat, NPPSFA; 1.60A {Homo sapiens}
Length = 89
Score = 26.4 bits (58), Expect = 4.8
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 13/58 (22%)
Query: 219 NWDESQESGSKENEG-----QTKGWVNVSSMINDESQLDDNEKNIYEWAKEGKLDMLV 271
+W + GS + EG GW++V D N Y EGK D+ +
Sbjct: 33 DWKWRDQDGSPQGEGTVTGELHNGWIDV--------TWDAGGSNSYRMGAEGKFDLKL 82
>4g06_A Uncharacterized protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium (NESG); HET: DT; 2.90A {Streptococcus
pneumoniae}
Length = 79
Score = 26.0 bits (57), Expect = 5.1
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 165 KYIALLKEVDAGWEDKEQEEINW----------DWKPNQKAMSKYIALLNE 205
+++ L E + GW KE +++ W P+ M K I L NE
Sbjct: 18 EHLLTLSENEKGWT-KEINRVSFNGAPAKFDIRAWSPDHTKMGKGITLSNE 67
>1hh2_P NUSA, N utilization substance protein A; transcription
regulation, termination; 2.1A {Thermotoga maritima}
SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A
Length = 344
Score = 27.8 bits (63), Expect = 5.1
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 32 YGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDSHV 73
+G N V+ D+NTG +Q E V++V + +
Sbjct: 39 FGNSKNVEVVIDRNTG-----NIKVYQLLEVVEEVEDPATQI 75
>3pm7_A Uncharacterized protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium, NESG; 2.00A {Enterococcus faecalis}
Length = 80
Score = 26.0 bits (57), Expect = 5.5
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 11/51 (21%)
Query: 165 KYIALLKEVDAGWEDKEQEEINW----------DWKPNQKAMSKYIALLNE 205
+ +A+L E GW KE I+W +W P+ + M K I L NE
Sbjct: 11 EEVAVLSENARGWR-KELNLISWNGRPPKFDLREWAPDHEKMGKGITLTNE 60
>2ltd_A Uncharacterized protein YDBC; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Lactococcus lactis subsp}
Length = 80
Score = 26.0 bits (57), Expect = 5.6
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 11/51 (21%)
Query: 165 KYIALLKEVDAGWEDKEQEEINW----------DWKPNQKAMSKYIALLNE 205
+ + +L E GW KE ++W W P+ + M K I L E
Sbjct: 11 EELIVLSENAKGWR-KELNRVSWNDAEPKYDIRTWSPDHEKMGKGITLSEE 60
>2l3a_A Uncharacterized protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium, NESG; NMR {Streptococcus pneumoniae} PDB:
3obh_A*
Length = 82
Score = 26.0 bits (57), Expect = 6.5
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 165 KYIALLKEVDAGWEDKEQEEINW----------DWKPNQKAMSKYIALLNE 205
+++ L E + GW KE +++ W P+ M K I L NE
Sbjct: 13 EHLLTLSENEKGWT-KEINRVSFNGAPAKFDIRAWSPDHTKMGKGITLSNE 62
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.7 bits (58), Expect = 8.7
Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 13/71 (18%)
Query: 160 SEAMSK----YIALLKEVDAG-------WEDKEQEEINWDWKPNQ-KAMSKYIALLNEVD 207
E++ K L+E+DA W +K ++++ +W Q + + K D
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLE-EWNQRQSEQVEKNKINNRIAD 142
Query: 208 ASWEDKEQEEI 218
++ + +I
Sbjct: 143 KAFYQQPDADI 153
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 27.2 bits (61), Expect = 9.1
Identities = 10/45 (22%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 303 KVVQHLIEKCGADVNVTDSDGD---YGLDYAKAIEHTDLIEYLVN 344
+++ + E GA++ + D DG D A I + N
Sbjct: 618 QMINQIQEDTGAEITIED-DGTIYIGAADGPAAEAARATINGIAN 661
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 27.5 bits (62), Expect = 9.3
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 303 KVVQHLIEKCGADVNVTDSDGD---YGLDYAKAIEHTDLIEYLV 343
KV++ ++ GA V++ D DG D AK D I+ +
Sbjct: 590 KVIREIVATTGAKVDIND-DGVVKVSASDGAKIKAAIDWIKSIT 632
>2kwp_A Transcription elongation protein NUSA; NMR {Escherichia coli}
Length = 129
Score = 26.3 bits (59), Expect = 9.3
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 30 SEYGQIMNASVMFDKNTGLSKGFGFVTFQNKEAVDKVFSTDSHV 73
+Y Q ++ V D+ +G F TF+ VD+V +
Sbjct: 37 KKYEQEIDVRVQIDRKSG-----DFDTFRRWLVVDEVTQPTKEI 75
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 27.1 bits (61), Expect = 9.6
Identities = 6/44 (13%), Positives = 15/44 (34%), Gaps = 4/44 (9%)
Query: 303 KVVQHLIEKCGADVNVTDSDGD---YGLDYAKAIEHTDLIEYLV 343
++ L + G ++ D + + + E D I +
Sbjct: 587 YNLKKLQAETGVTISQVD-EETFSVFAPTPSAMHEARDFITEIC 629
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A);
basic-helix-loop- helix-leucine zipper, transcription
factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1
PDB: 1ukl_C
Length = 82
Score = 25.4 bits (56), Expect = 9.8
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 82 QPSDSHNRMAE-----NMEDRFNQACDYLPSLVKKLDSSTLLK 119
+ +HN E ++ D+ + D + KL+ S +L+
Sbjct: 5 EKRTAHN-AIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLR 46
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.312 0.129 0.383
Gapped
Lambda K H
0.267 0.0601 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,166,038
Number of extensions: 292707
Number of successful extensions: 1359
Number of sequences better than 10.0: 1
Number of HSP's gapped: 952
Number of HSP's successfully gapped: 491
Length of query: 347
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 253
Effective length of database: 4,077,219
Effective search space: 1031536407
Effective search space used: 1031536407
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.4 bits)