RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7530
(60 letters)
>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 = 53.8 bits (130), Expect = 1e-11
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S M + K+F+GGLS TT E ++ YF QFG V
Sbjct: 19 SHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEV 52
>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 = 52.2 bits (126), Expect = 3e-11
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++ KIFVGG+ +++ YF++FG V
Sbjct: 8 SKSNKIFVGGIPHNCGETELREYFKKFGVV 37
>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 = 50.3 bits (121), Expect = 2e-10
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+FVG + T E+++ +F Q+G V
Sbjct: 10 HGSKVFVGRCTEDMTAEELQQFFCQYGEV 38
>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 = 50.4 bits (121), Expect = 3e-10
Identities = 14/34 (41%), Positives = 24/34 (70%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + +K+F+GGLS TT E ++NY+EQ+G +
Sbjct: 21 KREKEQFRKLFIGGLSFETTEESLRNYYEQWGKL 54
>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 = 49.9 bits (120), Expect = 3e-10
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 6 NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + V +T + V GL TT +D+K YF FG V
Sbjct: 7 GVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEV 42
>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 = 49.1 bits (118), Expect = 5e-10
Identities = 8/30 (26%), Positives = 18/30 (60%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + +FVG + T ++++ +F Q+G V
Sbjct: 3 SGSSGVFVGRCTGDMTEDELREFFSQYGDV 32
>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 = 48.7 bits (117), Expect = 6e-10
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 5 INISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
IN S+ K+FVGGLS T+ +D+K+YF +FG V
Sbjct: 2 INASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEV 38
>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 = 49.2 bits (118), Expect = 6e-10
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+FVGGL TT E +++YF Q+G V
Sbjct: 14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEV 43
>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 = 50.4 bits (121), Expect = 8e-10
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
KKIFVGG+ T +++YFEQ+G +
Sbjct: 98 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 131
Score = 46.5 bits (111), Expect = 2e-08
Identities = 13/34 (38%), Positives = 24/34 (70%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + +K+F+GGLS TT E ++++FEQ+G +
Sbjct: 7 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTL 40
>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 = 48.8 bits (117), Expect = 1e-09
Identities = 15/30 (50%), Positives = 18/30 (60%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T KIFVGGL TT ++ YFE FG +
Sbjct: 15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDI 44
Score = 22.6 bits (49), Expect = 7.9
Identities = 4/16 (25%), Positives = 7/16 (43%)
Query: 9 QMVTRTKKIFVGGLSA 24
+ + I V G S+
Sbjct: 100 RSLQTGFAIGVSGPSS 115
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 47.1 bits (113), Expect = 2e-09
Identities = 21/26 (80%), Positives = 23/26 (88%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
KIFVGGLS TT+EDVK+YFEQFG V
Sbjct: 1 KIFVGGLSVNTTVEDVKHYFEQFGKV 26
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 114
Score = 48.1 bits (114), Expect = 2e-09
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ ++K+FVGGL +++ F +FGP+
Sbjct: 6 SGSRKVFVGGLPPDIDEDEITASFRRFGPL 35
>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 = 48.7 bits (117), Expect = 3e-09
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+T KIFVGG+ ++ + +F Q+G +
Sbjct: 86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTI 114
Score = 46.4 bits (111), Expect = 2e-08
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ K+F+GGL+ TT ++++ YF ++G V
Sbjct: 2 ESCKMFIGGLNWDTTEDNLREYFGKYGTV 30
>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 = 46.3 bits (111), Expect = 4e-09
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
KIFVGGLS T E ++ YF FG V
Sbjct: 1 KIFVGGLSPDTPEEKIREYFGGFGEV 26
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 46.5 bits (111), Expect = 5e-09
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S + + +FV G + YF FGPV
Sbjct: 2 SSGSSGLRSVFVSGFPRGVDSAQLSEYFLAFGPV 35
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1
Length = 77
Score = 45.6 bits (109), Expect = 8e-09
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+F+GGLS TT E ++ YF QFG V
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEV 27
>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 = 44.1 bits (105), Expect = 4e-08
Identities = 7/36 (19%), Positives = 19/36 (52%)
Query: 6 NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++ + +FVGG+ +++++F ++G V
Sbjct: 1 SLPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSV 36
>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 = 42.6 bits (101), Expect = 2e-07
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S M + K+FVGGLS T + ++ F ++G +
Sbjct: 6 SGMASDEGKLFVGGLSFDTNEQSLEQVFSKYGQI 39
>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 = 41.6 bits (98), Expect = 5e-07
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYY 43
K +F+ LS + E + +QFG + Y
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKY 44
>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 = 40.4 bits (95), Expect = 2e-06
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +F L+A D++++F G V
Sbjct: 26 RTVFCMQLAARIRPRDLEDFFSAVGKV 52
>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 = 39.9 bits (94), Expect = 2e-06
Identities = 10/34 (29%), Positives = 20/34 (58%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S + + ++FV LS ++ ED++ F +GP+
Sbjct: 2 SSGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPL 35
>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 = 39.9 bits (94), Expect = 2e-06
Identities = 10/34 (29%), Positives = 17/34 (50%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S M T + ++VGGL+ + + F FG +
Sbjct: 6 SGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDI 39
>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 = 40.5 bits (95), Expect = 2e-06
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V GLS TT D++ F ++GP+
Sbjct: 46 NCCLGVFGLSLYTTERDLREVFSKYGPI 73
>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 = 39.5 bits (93), Expect = 3e-06
Identities = 13/28 (46%), Positives = 20/28 (71%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T KIFVG +SA T +++++ FE+ G V
Sbjct: 9 TWKIFVGNVSAACTSQELRSLFERRGRV 36
>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 = 39.4 bits (93), Expect = 3e-06
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
M T + ++VGGL+ + + F FG +
Sbjct: 3 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDI 34
>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 = 41.0 bits (95), Expect = 3e-06
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K +FV ++ TT ++ FE +GP+
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPI 129
>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 = 39.1 bits (92), Expect = 3e-06
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ I+VG L T E VK F QFG V
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKV 28
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 95
Score = 39.1 bits (92), Expect = 4e-06
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V GLS TT D++ F ++GP+
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPI 42
>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 = 39.2 bits (92), Expect = 4e-06
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K + + LS T E ++ FE+ +
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFI 42
>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 = 39.1 bits (92), Expect = 4e-06
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ K+F+G L T +++++ FEQ+G V
Sbjct: 6 SGMVKLFIGNLPREATEQEIRSLFEQYGKV 35
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition
motif, C-terminal helix, N-terminal helix, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 39.2 bits (92), Expect = 5e-06
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +FVG + T E +K+ F + GPV
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPV 35
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 92
Score = 38.8 bits (91), Expect = 5e-06
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ K+ VG +S T ++++ FE++GPV
Sbjct: 9 ASTKLHVGNISPTCTNQELRAKFEEYGPV 37
>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 = 38.8 bits (91), Expect = 5e-06
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+F+G + +D+K FE+FG +Y
Sbjct: 14 IKLFIGQIPRNLDEKDLKPLFEEFGKIY 41
>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 = 38.8 bits (91), Expect = 7e-06
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+F+GGL+ T + +K F + GP+
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPI 34
>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 = 38.4 bits (90), Expect = 7e-06
Identities = 6/28 (21%), Positives = 14/28 (50%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++ +++G + T E + + GPV
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPV 29
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 38.4 bits (90), Expect = 8e-06
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V L+ T+ + ++ FE++G V
Sbjct: 13 MITLKVDNLTYRTSPDSLRRVFEKYGRV 40
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 39.0 bits (91), Expect = 8e-06
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V L+ T+ + ++ FE++G V
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRV 74
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT
arginine/serine-rich 2, S35, splicing factor SC35,; RRM
domain, cell WALL; NMR {Streptococcus SP}
Length = 158
Score = 39.1 bits (91), Expect = 1e-05
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V L+ T+ + ++ FE++G V
Sbjct: 70 MTSLKVDNLTYRTSPDTLRRVFEKYGRV 97
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 38.6 bits (90), Expect = 1e-05
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ ++VGGL+ + + F FG +
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDI 90
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 37.8 bits (88), Expect = 1e-05
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +++ G TL+D+K + E G V
Sbjct: 12 RSVYIKGFPTDATLDDIKEWLEDKGQV 38
>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 = 38.7 bits (91), Expect = 1e-05
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+K+F+G +S T D++ F FG +
Sbjct: 89 KNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQI 122
Score = 37.6 bits (88), Expect = 4e-05
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+FVG + + +D++ FEQ+G VY
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVY 31
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 37.6 bits (88), Expect = 2e-05
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K++ V + D++ F QFG +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKI 42
>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 = 37.5 bits (88), Expect = 2e-05
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ ++VG L T + ++ FE FG +
Sbjct: 5 SSGLYVGSLHFNITEDMLRGIFEPFGKI 32
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 37.8 bits (88), Expect = 2e-05
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ IFV GL T+E V +YF+Q G +
Sbjct: 5 SDNNTIFVQGLGENVTIESVADYFKQIGII 34
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 37.3 bits (87), Expect = 2e-05
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+F+ GL T E+++ + G V
Sbjct: 17 KHKLFISGLPFSCTKEELEEICKAHGTV 44
>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 = 37.3 bits (87), Expect = 2e-05
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ K +FV L+ T E ++ F QFG +
Sbjct: 9 AKVKVLFVRNLANTVTEEILEKAFSQFGKL 38
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 37.3 bits (87), Expect = 2e-05
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++ K ++V L T+ E ++ F P
Sbjct: 9 EDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPG 42
>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 = 37.2 bits (87), Expect = 2e-05
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ T+ ++FVG L T E+++ FE++G
Sbjct: 9 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKA 42
>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 = 37.5 bits (87), Expect = 2e-05
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGI 53
++ V GL + +D+K++ + G V Y R G+
Sbjct: 18 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGV 55
>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 = 37.8 bits (88), Expect = 3e-05
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT--ACDRF 49
+ ++VG + +T +D++ +F G + CD+F
Sbjct: 36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKF 73
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 36.9 bits (86), Expect = 3e-05
Identities = 2/28 (7%), Positives = 10/28 (35%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
I + ++ T ++ + + +
Sbjct: 9 MDTIILRNIAPHTVVDSIMTALSPYASL 36
>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 = 36.8 bits (86), Expect = 3e-05
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T +++VGGL T+L + F++FG +
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSI 44
>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 = 36.9 bits (86), Expect = 3e-05
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + LS T +++K FE +
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEI 43
>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 = 36.9 bits (86), Expect = 3e-05
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T KI V + +++ F FG +
Sbjct: 14 TTSKILVRNIPFQANQREIRELFSTFGEL 42
>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 = 37.5 bits (87), Expect = 3e-05
Identities = 9/34 (26%), Positives = 19/34 (55%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++ ++ ++VG LS TT E + F + G +
Sbjct: 33 EKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDI 66
>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 = 37.4 bits (87), Expect = 3e-05
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FV G+ T ED+ + F ++G +
Sbjct: 24 ILFVTGVHEEATEEDIHDKFAEYGEI 49
>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 = 36.9 bits (86), Expect = 3e-05
Identities = 4/27 (14%), Positives = 12/27 (44%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FV + ++++ F +G +
Sbjct: 27 WILFVTSIHEEAQEDEIQEKFCDYGEI 53
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD,
oskar mRNA localization, translation; 1.90A {Drosophila
melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Length = 165
Score = 37.5 bits (87), Expect = 4e-05
Identities = 4/28 (14%), Positives = 12/28 (42%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FV + ++++ F +G +
Sbjct: 72 GWILFVTSIHEEAQEDEIQEKFCDYGEI 99
>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 = 36.9 bits (86), Expect = 4e-05
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++VG L T + ++ FE FG +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRI 53
>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 = 37.6 bits (88), Expect = 4e-05
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
Q + K+F+GGL + VK FGP+
Sbjct: 89 QPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPL 121
Score = 35.3 bits (82), Expect = 3e-04
Identities = 5/27 (18%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++++VG + T E + ++F +
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRL 31
>3n9u_C Cleavage and polyadenylation specificity factor S;
protein-protein complex, coexpression, heterotetramer,
mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 37.6 bits (87), Expect = 4e-05
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S + R ++VG S TT + + G
Sbjct: 49 SGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVY 82
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 36.9 bits (86), Expect = 4e-05
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K++ V + D++ F QFG +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKI 56
>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 = 36.4 bits (85), Expect = 5e-05
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++V L T D+ F ++G V
Sbjct: 17 STVYVSNLPFSLTNNDLYRIFSKYGKV 43
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A
{Homo sapiens} SCOP: d.58.7.1
Length = 106
Score = 36.5 bits (85), Expect = 5e-05
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FV G+ T ED+ + F ++G +
Sbjct: 25 ILFVTGVHEEATEEDIHDKFAEYGEI 50
>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 = 36.0 bits (84), Expect = 5e-05
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ I+VG + T E+++ +F G V
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSV 33
>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 = 36.4 bits (85), Expect = 6e-05
Identities = 9/28 (32%), Positives = 12/28 (42%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
I V LS T D++ F FG +
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSI 42
>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 = 36.2 bits (84), Expect = 7e-05
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ I+V GL+ TL+D+ ++F+Q G V
Sbjct: 9 PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVV 42
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 36.1 bits (84), Expect = 8e-05
Identities = 9/44 (20%), Positives = 15/44 (34%), Gaps = 7/44 (15%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG 60
++G + T D+ F+ FG + F P K
Sbjct: 30 AYIGNIPHFATEADLIPLFQNFGFILD-------FKHYPEKGCC 66
>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 = 35.8 bits (83), Expect = 8e-05
Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
+ + I V L + ++V + + + Y DR
Sbjct: 3 SGSSGILVKNLPQDSNCQEVHDLLKDYDLK-YCYVDR 38
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 36.9 bits (86), Expect = 8e-05
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+I+V + + +D+K+ FE FG +
Sbjct: 124 AFNRIYVASVHQDLSDDDIKSVFEAFGKI 152
Score = 35.8 bits (83), Expect = 2e-04
Identities = 6/34 (17%), Positives = 15/34 (44%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +++VG + + ++ F FGP+
Sbjct: 22 QGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPI 55
>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 = 37.0 bits (86), Expect = 9e-05
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ T+ ++FVG L T ED K FE++G
Sbjct: 17 KTYTQRCRLFVGNLPTDITEEDFKRLFERYGEP 49
Score = 37.0 bits (86), Expect = 9e-05
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T + V LS + E ++ F QFGPV
Sbjct: 94 THGAALTVKNLSPVVSNELLEQAFSQFGPV 123
>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 = 35.7 bits (83), Expect = 9e-05
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++VGGL + + F Q GPV
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPV 42
>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 = 35.9 bits (83), Expect = 9e-05
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGI 53
++ V GL + +D+K++ + G V Y R G+
Sbjct: 17 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGV 54
>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 = 36.6 bits (84), Expect = 1e-04
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +++G L+ TT ED+ G
Sbjct: 67 KRIALYIGNLTWWTTDEDLTEAVHSLGVN 95
>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 = 35.4 bits (82), Expect = 1e-04
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ IFV GL T+E V +YF+Q G +
Sbjct: 7 HHSHSDNNTIFVQGLGENVTIESVADYFKQIGII 40
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding
protein; NMR {Homo sapiens}
Length = 101
Score = 35.3 bits (82), Expect = 1e-04
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K++VG L +++ F +GP+
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPL 27
>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 = 35.2 bits (82), Expect = 1e-04
Identities = 6/28 (21%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +++ GL TT +D+ + +G +
Sbjct: 5 SSGLYIRGLQPGTTDQDLVKLCQPYGKI 32
>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 = 36.0 bits (84), Expect = 1e-04
Identities = 4/27 (14%), Positives = 12/27 (44%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+F+G L+ ++ ++K +
Sbjct: 14 FNLFIGNLNPNKSVAELKVAISELFAK 40
Score = 31.4 bits (72), Expect = 0.006
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + LS T +++K FE +
Sbjct: 99 ARTLLAKNLSFNITEDELKEVFEDALEI 126
>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 = 35.2 bits (82), Expect = 1e-04
Identities = 6/29 (20%), Positives = 14/29 (48%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ K+ +G L+ T + + F +G +
Sbjct: 3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKI 31
>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 = 35.3 bits (82), Expect = 1e-04
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K+++G LS T +D++ F
Sbjct: 9 NKLYIGNLSPAVTADDLRQLFGDRKLPL 36
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 35.1 bits (81), Expect = 1e-04
Identities = 6/29 (20%), Positives = 13/29 (44%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
R +K+ + + E + + Q+G V
Sbjct: 14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVV 42
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 35.3 bits (82), Expect = 1e-04
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
++FV ++ F FGP+
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPM 58
>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 = 34.9 bits (81), Expect = 2e-04
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY 43
++VGGL T D++N+F QFG +
Sbjct: 10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRT 41
>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 = 35.4 bits (82), Expect = 2e-04
Identities = 7/26 (26%), Positives = 16/26 (61%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+I+VG L +D+++ F ++G +
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAI 49
>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 = 35.0 bits (81), Expect = 2e-04
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+FVG L+ + EDV F+ FG +
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVI 42
>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 = 35.4 bits (82), Expect = 2e-04
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FVG LS T ED+K F FG +
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRI 42
>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 = 35.3 bits (81), Expect = 2e-04
Identities = 7/35 (20%), Positives = 13/35 (37%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
++ I + L T +V + FG V +
Sbjct: 31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK 65
>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 = 34.9 bits (81), Expect = 2e-04
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +FVG L A E + F Q GP+
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPL 43
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 35.6 bits (82), Expect = 2e-04
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+ V L + D++ F +FG +
Sbjct: 90 KLLVSNLDFGVSDADIQELFAEFGTL 115
>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 = 35.2 bits (81), Expect = 2e-04
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K++VG L +++ F +GP+
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPL 100
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 34.7 bits (80), Expect = 2e-04
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
+ + + GL D+ ++FGP+ Y
Sbjct: 21 SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP 55
>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 = 34.5 bits (80), Expect = 3e-04
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +F+ L+ TT E +K F + G +
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAI 32
>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM
domain, RNA- binding, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 104
Score = 34.5 bits (79), Expect = 3e-04
Identities = 7/26 (26%), Positives = 9/26 (34%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFG 39
+ V GL E + YFE
Sbjct: 8 GVAVEVRGLPPAVPDELLTLYFENRR 33
>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 = 34.0 bits (79), Expect = 3e-04
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T +FVG L+ E ++N F+ F
Sbjct: 1 TFNLFVGDLNVNVDDETLRNAFKDFPSY 28
>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 = 34.4 bits (79), Expect = 3e-04
Identities = 4/26 (15%), Positives = 11/26 (42%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
++F+GG+ E++ +
Sbjct: 10 RLFIGGIPKMKKREEILEEIAKVTEG 35
>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 = 34.7 bits (80), Expect = 4e-04
Identities = 5/27 (18%), Positives = 13/27 (48%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + V + ++ FE++GP+
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPI 69
>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 = 34.4 bits (79), Expect = 4e-04
Identities = 8/35 (22%), Positives = 13/35 (37%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
+ + V GL D+ E+FG + Y
Sbjct: 15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP 49
>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 = 34.2 bits (79), Expect = 4e-04
Identities = 4/26 (15%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+F+G L+ ++ ++K +
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAK 44
>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 = 34.1 bits (79), Expect = 4e-04
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ ++VG LS T + F Q GP
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPC 42
>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 = 33.8 bits (78), Expect = 5e-04
Identities = 6/25 (24%), Positives = 15/25 (60%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
++ GG+++ T + ++ F FG +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQI 52
>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 = 34.0 bits (78), Expect = 5e-04
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
I L A T +++ F +FG +
Sbjct: 13 ILAKNLPAGTLAAEIQETFSRFGSL 37
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 33.7 bits (77), Expect = 5e-04
Identities = 7/35 (20%), Positives = 13/35 (37%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
++ I + L T +V + FG V +
Sbjct: 16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK 50
>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 = 34.2 bits (79), Expect = 6e-04
Identities = 5/27 (18%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++++VG + T E + ++F +
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRL 31
Score = 34.2 bits (79), Expect = 7e-04
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+F+GGL + VK FGP+
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPL 141
>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 = 33.8 bits (78), Expect = 7e-04
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
K +++ LS T D+ + F +F
Sbjct: 25 NKVLYLKNLSPRVTERDLVSLFARFQEKK 53
>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 = 33.9 bits (78), Expect = 7e-04
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+ V L + D++ F +FG +
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTL 62
>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 = 33.4 bits (77), Expect = 7e-04
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 14 TKKIFVGGLSAPT-TLEDVKNYFEQFGPV 41
++F+G L + ED+ F +G +
Sbjct: 22 KSRLFIGNLPLKNVSKEDLFRIFSPYGHI 50
>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 = 33.3 bits (77), Expect = 7e-04
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FVG LS T + F FG +
Sbjct: 8 HVFVGDLSPEITTAAIAAAFAPFGRI 33
>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 = 32.9 bits (76), Expect = 8e-04
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++G L+ TT ED+ G
Sbjct: 3 ALYIGNLTWWTTDEDLTEAVHSLGVN 28
>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 = 33.7 bits (78), Expect = 9e-04
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V L T E+ ++ F G +
Sbjct: 4 NLIVNYLPQNMTQEEFRSLFGSIGEI 29
Score = 30.6 bits (70), Expect = 0.011
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
S R ++V GL T ++++ F Q+G +
Sbjct: 82 SSASIRDANLYVSGLPKTMTQKELEQLFSQYGRI 115
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 32.5 bits (75), Expect = 0.001
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+IFV L T + +K+ F + G V
Sbjct: 9 CQIFVRNLPFDFTWKMLKDKFNECGHV 35
>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 = 33.0 bits (75), Expect = 0.001
Identities = 8/38 (21%), Positives = 14/38 (36%)
Query: 5 INISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
I T++ + GGL + + E+ G V
Sbjct: 18 IETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVD 55
>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 = 32.7 bits (75), Expect = 0.001
Identities = 8/27 (29%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 16 KIFVGGLSA-PTTLEDVKNYFEQFGPV 41
++F+G L+ DV+ F ++G V
Sbjct: 29 RVFIGNLNTALVKKSDVETIFSKYGRV 55
>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 = 32.6 bits (75), Expect = 0.001
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+K +FV GLS TT E +K F+
Sbjct: 15 SKTLFVKGLSEDTTEETLKESFDGSVRA 42
>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 = 32.7 bits (75), Expect = 0.002
Identities = 6/28 (21%), Positives = 16/28 (57%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +++ L T E++ + F ++GP+
Sbjct: 8 NRILYIRNLPYKITAEEMYDIFGKYGPI 35
>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 = 32.3 bits (74), Expect = 0.002
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
K+ V L + D++ F +FG +
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTL 56
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin
modification, transcription regulation, structural
genomics, structural genomics consortium; 1.30A {Homo
sapiens}
Length = 110
Score = 32.0 bits (73), Expect = 0.003
Identities = 5/27 (18%), Positives = 12/27 (44%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
K++ L+ +K+ ++G V
Sbjct: 7 KEVTFARLNDNVRETFLKDMCRKYGEV 33
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 31.8 bits (73), Expect = 0.003
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 14 TKKIFVGGLSAPT-TLEDVKNYFEQFGPV 41
++F+G L + ED+ F +G +
Sbjct: 10 KSRLFIGNLPLKNVSKEDLFRIFSPYGHI 38
>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 121
Score = 31.9 bits (72), Expect = 0.003
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 18 FVGGLSAPTTLEDVKNYFEQFGPVYY 43
F G L T ED+ F G + +
Sbjct: 23 FSGDLDDQTCREDLHILFSNHGEIKW 48
>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 = 32.2 bits (74), Expect = 0.004
Identities = 6/26 (23%), Positives = 10/26 (38%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V L T ++ F GP+
Sbjct: 5 NLIVNYLPQDMTDRELYALFRAIGPI 30
Score = 28.3 bits (64), Expect = 0.098
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
++V L T + + F ++G +
Sbjct: 91 NLYVTNLPRTITDDQLDTIFGKYGSI 116
>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 = 31.3 bits (71), Expect = 0.005
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++ + + L T +V FG V
Sbjct: 13 APSRVLHIRKLPGEVTETEVIALGLPFGKV 42
>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 = 31.0 bits (70), Expect = 0.008
Identities = 5/30 (16%), Positives = 13/30 (43%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++ GL + V ++F++ V
Sbjct: 23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIV 52
>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 = 31.5 bits (72), Expect = 0.008
Identities = 6/33 (18%), Positives = 11/33 (33%)
Query: 9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
Q+ + V L T + + FG +
Sbjct: 90 QLQPTDALLCVANLPPSLTQQQFEELVRPFGSL 122
Score = 30.3 bits (69), Expect = 0.018
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
+KI + GL T ++V + + Y
Sbjct: 23 RKILIRGLPGDVTNQEVHDLLSDYELKY 50
Score = 25.7 bits (57), Expect = 0.84
Identities = 2/30 (6%), Positives = 8/30 (26%), Gaps = 1/30 (3%)
Query: 13 RTKKIFVGGLSAPTT-LEDVKNYFEQFGPV 41
++ + V L ++ +
Sbjct: 183 HSRCLCVDRLPPGFNDVDALCRALSAVHSP 212
>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 = 30.7 bits (70), Expect = 0.009
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FV L + +K F G V
Sbjct: 17 TVFVANLDYKVGWKKLKEVFSMAGVV 42
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 97
Score = 30.6 bits (69), Expect = 0.010
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
++VG L + D+K + G V
Sbjct: 21 DVYVGNLPRDARVSDLKRALRELGSV 46
>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 = 31.1 bits (71), Expect = 0.011
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVY 42
+ V L V YF+ GP+
Sbjct: 44 VLVKNLPKSYNQNKVYKYFKHCGPII 69
Score = 30.7 bits (70), Expect = 0.015
Identities = 2/26 (7%), Positives = 10/26 (38%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++ T ++++ + V
Sbjct: 119 TLWMTNFPPSYTQRNIRDLLQDINVV 144
Score = 29.2 bits (66), Expect = 0.040
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 15 KKIFVGGLSAPTTLED-VKNYFEQFGPV 41
++I + LS E+ ++ FE FG +
Sbjct: 211 REIMIRNLSTELLDENLLRESFEGFGSI 238
>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 = 30.3 bits (69), Expect = 0.012
Identities = 7/27 (25%), Positives = 10/27 (37%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
F+G L T E +K +F
Sbjct: 16 YTAFLGNLPYDVTEESIKEFFRGLNIS 42
>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 = 30.1 bits (68), Expect = 0.014
Identities = 8/44 (18%), Positives = 15/44 (34%), Gaps = 9/44 (20%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG 60
++V G T ++ F FG + + P +N
Sbjct: 42 LYVYGED--MTPTLLRGAFSPFGNIID-------LSMDPPRNCA 76
>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 = 29.8 bits (67), Expect = 0.019
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + GL T E++ +F V
Sbjct: 40 ANDGFVRLRGLPFGCTKEEIVQFFSGLEIV 69
>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif,
G-tract, G-quadruplex, alternative splicing, RNA
binding protein; NMR {Homo sapiens} PDB: 2kg1_A
Length = 139
Score = 30.2 bits (68), Expect = 0.020
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T + + GL T D+ N+F PV
Sbjct: 44 TTGHCVHMRGLPYKATENDIYNFFSPLNPV 73
>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 = 29.8 bits (67), Expect = 0.021
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 11 VTRTKKIFVGGLSAPTTLEDV---KNYFEQFGPV 41
V + +FV GLS +V YF +FG +
Sbjct: 12 VVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKI 45
>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 = 29.5 bits (67), Expect = 0.022
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
++V L E ++ F FG +
Sbjct: 17 NLYVKNLDDGIDDERLRKAFSPFGTI 42
>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 = 29.5 bits (67), Expect = 0.024
Identities = 7/27 (25%), Positives = 10/27 (37%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
F+G L T E +K +F
Sbjct: 20 YTAFLGNLPYDVTEESIKEFFRGLNIS 46
>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 = 29.3 bits (66), Expect = 0.026
Identities = 5/31 (16%), Positives = 11/31 (35%)
Query: 11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + GL + E++ +F V
Sbjct: 12 TANDGFVRLRGLPFGCSKEEIVQFFSGLEIV 42
>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 = 28.8 bits (65), Expect = 0.035
Identities = 3/30 (10%), Positives = 13/30 (43%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
I V + +++++ ++F + +
Sbjct: 13 PGPTVIKVQNMPFTVSIDEILDFFYGYQVI 42
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome
biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae}
PDB: 2osr_A
Length = 111
Score = 29.0 bits (65), Expect = 0.037
Identities = 4/26 (15%), Positives = 11/26 (42%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+I + L + +D+K+ +
Sbjct: 30 RITMKNLPEGCSWQDLKDLARENSLE 55
>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 = 28.9 bits (65), Expect = 0.044
Identities = 4/25 (16%), Positives = 7/25 (28%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + T DV + E
Sbjct: 18 AHITNIPFSITKMDVLQFLEGIPVD 42
>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 = 28.8 bits (65), Expect = 0.046
Identities = 3/29 (10%), Positives = 13/29 (44%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
I V + +++++ ++F + +
Sbjct: 14 GPTIIKVQNMPFTVSIDEILDFFYGYQVI 42
>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 = 28.5 bits (64), Expect = 0.048
Identities = 5/27 (18%), Positives = 14/27 (51%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
++++VG + T E + ++F +
Sbjct: 7 RRLYVGNIPFGITEEAMMDFFNAQMRL 33
>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 = 28.8 bits (65), Expect = 0.051
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ IF+ L + + + F FG +
Sbjct: 5 SGNIFIKNLDKSIDNKALYDTFSAFGNI 32
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 123
Score = 28.7 bits (64), Expect = 0.063
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + GL T E+V +F Q P+
Sbjct: 26 VRMRGLPFTATAEEVVAFFGQHCPI 50
>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 = 28.1 bits (63), Expect = 0.068
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + GL T D+ N+F P+
Sbjct: 18 VHMRGLPYRATENDIYNFFSPLNPM 42
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 28.4 bits (64), Expect = 0.069
Identities = 6/25 (24%), Positives = 9/25 (36%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
+VG L T D+ F+
Sbjct: 16 YTAYVGNLPFNTVQGDIDAIFKDLS 40
>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 = 27.9 bits (63), Expect = 0.080
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
IF+G L + + + F FG +
Sbjct: 7 GIFIGNLDPEIDEKLLYDTFSAFGVI 32
>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 = 28.3 bits (63), Expect = 0.080
Identities = 6/28 (21%), Positives = 13/28 (46%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+I+V L+ +D+K F ++
Sbjct: 45 NCRIYVKNLAKHVQEKDLKYIFGRYVDF 72
>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 = 28.1 bits (63), Expect = 0.088
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+F+ L +D+ F FG V
Sbjct: 27 NLFIYHLPQEFGDQDLLQMFMPFGNV 52
>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 = 27.6 bits (62), Expect = 0.11
Identities = 6/25 (24%), Positives = 11/25 (44%), Gaps = 2/25 (8%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
++V G T ++ F FG +
Sbjct: 18 LYVYGED--MTPTLLRGAFSPFGNI 40
>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 = 28.0 bits (63), Expect = 0.12
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
++VG L T + F GP+
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPI 42
Score = 26.1 bits (58), Expect = 0.60
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
IF+ L + + + F FG +
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNI 130
>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 = 27.9 bits (63), Expect = 0.12
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ ++VG L T + +K YF+ GP+
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPI 27
Score = 24.8 bits (55), Expect = 1.7
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+FVG L+ E ++N F+ F
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSY 114
>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 = 27.9 bits (61), Expect = 0.13
Identities = 8/41 (19%), Positives = 19/41 (46%)
Query: 1 MAAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + + + + +++ G TL+D+K + E G V
Sbjct: 96 LPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQV 136
>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 = 27.6 bits (62), Expect = 0.13
Identities = 5/26 (19%), Positives = 13/26 (50%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+++ L ++++N + FG V
Sbjct: 27 NLYISNLPLSMDEQELENMLKPFGQV 52
>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 = 27.3 bits (61), Expect = 0.13
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
T + + G T ++V + PV
Sbjct: 8 TTCHTVKLRGAPFNVTEKNVMEFLAPLKPV 37
>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 = 27.2 bits (60), Expect = 0.26
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 6 NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
N + + + + + + ED+K F G V
Sbjct: 112 NFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGV 147
Score = 24.1 bits (52), Expect = 3.0
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 17 IFVGGLSA-PTTLEDVKNYFEQFGPV 41
+ V L+ T + + F +G V
Sbjct: 6 LLVSNLNPERVTPQSLFILFGVYGDV 31
>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 = 26.6 bits (59), Expect = 0.29
Identities = 5/25 (20%), Positives = 10/25 (40%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+ V G+ DV+++F
Sbjct: 19 VSVHGMPFSAMENDVRDFFHGLRVD 43
>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 = 26.9 bits (59), Expect = 0.31
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 6 NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
N + + + + + + ED+K F G V
Sbjct: 143 NFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGV 178
Score = 24.6 bits (53), Expect = 2.2
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 17 IFVGGLSA-PTTLEDVKNYFEQFGPV 41
+ V L+ T + + F +G V
Sbjct: 37 LLVSNLNPERVTPQSLFILFGVYGDV 62
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA
recognition motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 26.6 bits (59), Expect = 0.31
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
+F+ L T D+ + F FG V
Sbjct: 42 NLFIYHLPQEFTDTDLASTFLPFGNV 67
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics,
PSI-biology, northeast structural genom consortium,
NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*
Length = 345
Score = 26.7 bits (58), Expect = 0.47
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 14 TKKIFV--GGLSAPTTLEDVKNYFEQFGPVY 42
T+ + V GGL + + E+ G V
Sbjct: 18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVD 48
>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 = 25.7 bits (57), Expect = 0.54
Identities = 4/27 (14%), Positives = 8/27 (29%)
Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGP 40
+++G L + F G
Sbjct: 9 AASLWMGDLEPYMDENFISRAFATMGE 35
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 25.9 bits (56), Expect = 0.75
Identities = 6/39 (15%), Positives = 14/39 (35%), Gaps = 9/39 (23%)
Query: 12 TRTKKIFVGGLSAPTTL---------EDVKNYFEQFGPV 41
+ K ++VGG+ ++ F + G +
Sbjct: 132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDI 170
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 24.7 bits (54), Expect = 1.3
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 18 FVGGLSAPTTLEDVKNYFEQFGPV 41
+ P + + + F + G V
Sbjct: 16 VIPSAKVPVLKKALTSLFSKAGKV 39
>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 = 25.2 bits (54), Expect = 1.5
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 17 IFVGGLSAPTTLEDVK----NYFEQFGPV 41
I++ L+ +++K F QFG +
Sbjct: 12 IYINNLNEKIKKDELKKSLYAIFSQFGQI 40
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 25.0 bits (54), Expect = 1.6
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +I V L P TL+ + F +FG V
Sbjct: 26 SPVLRIIVENLFYPVTLDVLHQIFSKFGTV 55
>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 = 24.8 bits (54), Expect = 1.6
Identities = 10/36 (27%), Positives = 13/36 (36%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFG 52
I GL T+EDV N+F F+
Sbjct: 14 IRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLN 49
>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 = 24.7 bits (53), Expect = 2.1
Identities = 3/29 (10%), Positives = 8/29 (27%)
Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + T E+ ++ G
Sbjct: 122 PSNVLHFFNAPLEVTEENFFEICDELGVK 150
Score = 23.9 bits (51), Expect = 3.4
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 14 TKKIFVGGLS-APTTLEDVKNYFEQFGPV 41
+ + V GL + + V N F +G V
Sbjct: 4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNV 32
>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 = 24.1 bits (52), Expect = 2.4
Identities = 5/26 (19%), Positives = 9/26 (34%), Gaps = 1/26 (3%)
Query: 17 IFVGGLSAP-TTLEDVKNYFEQFGPV 41
I + L + V E +G +
Sbjct: 28 IHLSNLPHSGYSDSAVLKLAEPYGKI 53
>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus,
protein transport, translocation, transport, transport
protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A
Length = 661
Score = 24.3 bits (52), Expect = 2.6
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 23 SAPTTLEDVKNYFEQFGPVYYTA 45
+LED +N +GP ++
Sbjct: 276 YERYSLEDFQNIIISYGPSRFSN 298
>3vlv_A ALGQ1; sugar binding protein, alginate; HET: MAW LGU; 1.50A
{Sphingomonas SP} PDB: 3vlu_A* 3vlw_A* 1y3n_A* 1y3p_A*
1y3q_A 1j1n_A* 1kwh_A
Length = 502
Score = 24.1 bits (52), Expect = 3.1
Identities = 4/18 (22%), Positives = 9/18 (50%)
Query: 21 GLSAPTTLEDVKNYFEQF 38
L P T++++ + F
Sbjct: 150 HLKTPQTVDELYTVLKAF 167
>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 = 23.7 bits (51), Expect = 3.3
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
+ + GL ++EDV+N+
Sbjct: 20 VKLRGLPWSCSIEDVQNFLSDCTIH 44
>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 = 23.9 bits (51), Expect = 3.4
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
+ +I V L P TL+ + F +FG V
Sbjct: 44 SPVLRIIVENLFYPVTLDVLHQIFSKFGTV 73
>3omb_A Extracellular solute-binding protein, family 1; PSI-2, midwest
center for structural genomics, protein struc
initiative, MCSG; 2.10A {Bifidobacterium longum subsp}
Length = 535
Score = 24.1 bits (52), Expect = 3.8
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 21 GLSAPTTLEDVKNYFEQF 38
GL PTT ++++N + F
Sbjct: 178 GLQVPTTWDELENVLKAF 195
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 23.5 bits (51), Expect = 4.6
Identities = 5/33 (15%), Positives = 9/33 (27%), Gaps = 6/33 (18%)
Query: 15 KKIFVGGL------SAPTTLEDVKNYFEQFGPV 41
I V + + F +FG +
Sbjct: 16 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKI 48
>1ck7_A Protein (gelatinase A); hydrolase (metalloprotease), FULL-length,
metalloproteinase; 2.80A {Homo sapiens} SCOP: a.20.1.2
b.66.1.1 d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2 PDB:
1gxd_A
Length = 631
Score = 23.3 bits (49), Expect = 7.1
Identities = 6/22 (27%), Positives = 8/22 (36%)
Query: 18 FVGGLSAPTTLEDVKNYFEQFG 39
F G ++ T E Y F
Sbjct: 8 FPGDVAPKTDKELAVQYLNTFY 29
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
0.327 0.142 0.427
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 920,077
Number of extensions: 39439
Number of successful extensions: 318
Number of sequences better than 10.0: 1
Number of HSP's gapped: 314
Number of HSP's successfully gapped: 193
Length of query: 60
Length of database: 6,701,793
Length adjustment: 31
Effective length of query: 29
Effective length of database: 5,836,242
Effective search space: 169251018
Effective search space used: 169251018
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.4 bits)