RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11608
(99 letters)
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 38.8 bits (91), Expect = 2e-05
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
F++Y + A+ + G+GK
Sbjct: 65 CCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKE 100
>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 = 38.0 bits (89), Expect = 4e-05
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVG--HNRVNLGYGKSLATT 56
+D K S FA++QY + + A M G +G R+ + + KS ++
Sbjct: 47 IDHVKGDS---FAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGPSS 96
Score = 34.9 bits (81), Expect = 6e-04
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 41 GHNRVNLGYGKSLATTCVWVDGVA 64
+ +GYGK+ TT +WV G+
Sbjct: 3 SGSSGKIGYGKANPTTRLWVGGLG 26
Score = 34.5 bits (80), Expect = 0.001
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 73 NRVNLGYGKSLATTCVWVDGVA 94
+ +GYGK+ TT +WV G+
Sbjct: 5 SSGKIGYGKANPTTRLWVGGLG 26
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 38.7 bits (90), Expect = 4e-05
Identities = 6/47 (12%), Positives = 17/47 (36%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+ + S A++ + S + A G N + + + ++
Sbjct: 63 IVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSET 109
>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 = 37.2 bits (87), Expect = 8e-05
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+ + + AFV + +++S A+R+M G + + Y K+
Sbjct: 42 ILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKT 88
>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 = 36.6 bits (85), Expect = 2e-04
Identities = 8/47 (17%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+ K +AFVQY++ A+ +G + +++
Sbjct: 58 CSVHK-----GYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGE 99
>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 = 36.2 bits (84), Expect = 2e-04
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
++FV+++ S A+ +++G + + V +GK
Sbjct: 63 YSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE 98
>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 = 37.1 bits (85), Expect = 3e-04
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 7 DIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
+ +AF++Y + A + DG+ + RV +
Sbjct: 137 SKRSGKP-RGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV 176
>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 = 36.2 bits (84), Expect = 3e-04
Identities = 9/44 (20%), Positives = 17/44 (38%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+ + A+V Y DI A+ + G V + + + Y
Sbjct: 38 IRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLY 81
>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 = 36.6 bits (84), Expect = 4e-04
Identities = 10/46 (21%), Positives = 21/46 (45%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGK 51
+K S A V+ D +V RA+ ++ ++ ++N+ K
Sbjct: 33 EKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSK 78
Score = 29.7 bits (66), Expect = 0.13
Identities = 2/38 (5%), Positives = 12/38 (31%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKSLA 54
+++ + + + ++ + + Y L
Sbjct: 167 SGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC 204
>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 = 35.9 bits (83), Expect = 4e-04
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
AFV Y + S +A+ ++G V ++ + +
Sbjct: 75 CAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK 110
>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 = 35.3 bits (82), Expect = 5e-04
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
AFV Y + S +A+ ++G V ++ + +
Sbjct: 51 CAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK 86
>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 = 36.0 bits (82), Expect = 6e-04
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 5 FVDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNR-VNLGYGK 51
F +++ AFV++ + A A+ G + N + + + K
Sbjct: 234 FKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFAK 281
Score = 35.6 bits (81), Expect = 0.001
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+ + + AFV + +++S A+R+M G + + Y K+
Sbjct: 43 ILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKT 89
>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 = 0.001
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRV 45
V + + FAFV++ D A+R +DG + RV
Sbjct: 103 VWVARNPPG--FAFVEFEDPRDAADAVRELDGRTLCGCRV 140
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 97
Score = 34.4 bits (79), Expect = 0.001
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
AF+ Y D A+ +A+ + G RV L +
Sbjct: 58 RAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQR 95
>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 = 34.2 bits (79), Expect = 0.001
Identities = 9/35 (25%), Positives = 21/35 (60%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGK 51
+AFV +++ V AM+A++G+ + + + + K
Sbjct: 53 YAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK 87
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 34.1 bits (79), Expect = 0.001
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
++IK AF F+Q+ + SV A+ E ++ L
Sbjct: 41 INIKN-----AFGFIQFDNPQSVRDAIECESQEMNFGKKLIL 77
>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 = 35.4 bits (81), Expect = 0.001
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNR-VNLGYGKS 52
A +Q + V+A+ + +G N + + + KS
Sbjct: 191 MALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS 227
Score = 33.4 bits (76), Expect = 0.005
Identities = 9/47 (19%), Positives = 16/47 (34%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+K + A VQ D AM ++G + + + K
Sbjct: 63 QRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH 109
>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 = 34.2 bits (79), Expect = 0.001
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNL 47
+D+K + FAFV++ D A+ DG +Y G+ RV
Sbjct: 52 IDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEF 95
>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 = 34.1 bits (79), Expect = 0.001
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
FAFV + V+A +DG+
Sbjct: 52 FAFVTFMFPEHAVKAYAEVDGQVFQ 76
>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 = 34.2 bits (79), Expect = 0.002
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+A V+Y + A A++G E +G +V+
Sbjct: 70 YALVEYETHKQALAAKEALNGAEIMGQTIQVD 101
>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 = 34.5 bits (79), Expect = 0.002
Identities = 9/47 (19%), Positives = 16/47 (34%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+K + A VQ D AM ++G + + + K
Sbjct: 32 QRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH 78
Score = 34.1 bits (78), Expect = 0.003
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNR-VNLGYGKS 52
A +Q + V+A+ + +G N + + + KS
Sbjct: 160 MALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS 196
>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 = 33.4 bits (77), Expect = 0.003
Identities = 7/38 (18%), Positives = 11/38 (28%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
F F++ A +D G RV +
Sbjct: 53 FGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSA 90
>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 = 33.0 bits (76), Expect = 0.003
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNR---VNLGYGKS 52
+AFV Y D +RA+ + G+ H + V+ K
Sbjct: 46 YAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK 84
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding
protein; NMR {Homo sapiens}
Length = 101
Score = 33.0 bits (76), Expect = 0.003
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
V I + FAFV++ D A+R +DG G RV L G
Sbjct: 30 VWIARNPPG--FAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMP 76
>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 = 33.0 bits (76), Expect = 0.003
Identities = 6/31 (19%), Positives = 12/31 (38%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
A V + A+ ++ +G +V L
Sbjct: 59 EAMVAFESRDEATAAVIDLNDRPIGSRKVKL 89
>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 = 33.0 bits (76), Expect = 0.003
Identities = 8/36 (22%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 17 FAFVQYTDIASVVRAMRAM-DGEYVGHNRVNLGYGK 51
AF+Q+ + A + V R+N+ +G+
Sbjct: 50 CAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWGR 85
>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 = 33.0 bits (76), Expect = 0.003
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
A V + D S A+ DG E+ G+ +V+
Sbjct: 65 EATVSFDDPPSAKAAIDWFDGKEFSGNPIKVS 96
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing
factor, RNA protein complex, SMN, binding protein-RNA
complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A
Length = 129
Score = 33.5 bits (77), Expect = 0.003
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV-GHN-RVN 46
FAFV + ++ A +G + G RV+
Sbjct: 90 FAFVYFENVDDAKEAKERANGMELDGRRIRVD 121
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 33.0 bits (76), Expect = 0.003
Identities = 9/36 (25%), Positives = 19/36 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
FAFV++ + S +A+ + G+ + + + Y K
Sbjct: 67 FAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKL 102
>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 = 33.0 bits (76), Expect = 0.004
Identities = 11/32 (34%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+ F +Y D + + AMR ++G E+ G RV+
Sbjct: 52 YGFCEYQDQETALSAMRNLNGREFSGRALRVD 83
>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 = 32.7 bits (75), Expect = 0.004
Identities = 6/31 (19%), Positives = 12/31 (38%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
A V + A+ ++ +G +V L
Sbjct: 59 EAMVAFESRDEATAAVIDLNDRPIGSRKVKL 89
>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 = 33.7 bits (77), Expect = 0.004
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+A V+Y + A A++G E +G +V+
Sbjct: 116 YALVEYETHKQALAAKEALNGAEIMGQTIQVD 147
>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 = 32.9 bits (75), Expect = 0.004
Identities = 9/50 (18%), Positives = 18/50 (36%)
Query: 1 MVMYFVDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYG 50
++ SA A+V Y +RA++ ++ V + G
Sbjct: 49 VINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLG 98
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 33.2 bits (76), Expect = 0.004
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAFV++ D AM AMDG G RV
Sbjct: 91 FAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ 122
>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 = 32.6 bits (75), Expect = 0.004
Identities = 6/36 (16%), Positives = 14/36 (38%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
A++++ A + + G + V+L Y
Sbjct: 55 IAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE 90
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A
{Homo sapiens} SCOP: d.58.7.1
Length = 106
Score = 32.6 bits (75), Expect = 0.005
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+ V+Y AM ++G + +G V+
Sbjct: 67 YTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 98
>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 = 32.7 bits (75), Expect = 0.005
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV-GHN-RVN 46
+ V+Y AM ++G+ + G V+
Sbjct: 66 YTLVEYETYKEAQAAMEGLNGQDLMGQPISVD 97
>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 = 32.6 bits (75), Expect = 0.005
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVN 46
FAFV++ D A AMDG + RV
Sbjct: 57 FAFVRFHDRRDAQDAEAAMDGAELDGRELRVQ 88
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 32.7 bits (74), Expect = 0.005
Identities = 8/36 (22%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 18 AFVQYTDIASVVRAMRAMDGE--YVGHNRVNLGYGK 51
A V++ + +A A++G Y G + + Y +
Sbjct: 65 AMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYAR 100
>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 = 32.3 bits (74), Expect = 0.006
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 5/42 (11%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
++IK AF F+Q+ + SV A+ E ++ L
Sbjct: 53 INIKN-----AFGFIQFDNPQSVRDAIEXESQEMNFGKKLIL 89
>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 = 32.9 bits (75), Expect = 0.006
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVNLGYGK 51
F FV+Y A AMR ++G + R + G
Sbjct: 83 FCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGF 119
>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 = 32.2 bits (74), Expect = 0.006
Identities = 7/32 (21%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+AF+++ D+ S A+R ++G + +
Sbjct: 46 YAFIEFRDLESSASAVRNLNGYQLGSRFLKCG 77
>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 = 33.0 bits (76), Expect = 0.006
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+ FV + + RA+ M+G + +V +G KS
Sbjct: 145 YGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS 180
Score = 26.5 bits (59), Expect = 1.3
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVN 46
+A+V + A RA+ M+ + + R+
Sbjct: 59 YAYVNFQQPADAERALDTMNFDVIKGKPVRIM 90
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 32.4 bits (74), Expect = 0.007
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNL 47
A V + D S A+ DG E+ G+ +V+
Sbjct: 59 EATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSF 91
>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 = 32.3 bits (74), Expect = 0.008
Identities = 8/36 (22%), Positives = 19/36 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
+AF+ + + V+AM M+G+ + + + + K
Sbjct: 47 YAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKP 82
>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 = 32.8 bits (74), Expect = 0.008
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 18 AFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
A +QY D S A ++DG+ + + L
Sbjct: 87 ALLQYADPVSAQHAKLSLDGQNIYNACCTL 116
>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 = 31.8 bits (73), Expect = 0.008
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+ FV + + A++ M G+++G
Sbjct: 50 YGFVSFFNKWDAENAIQQMGGQWLG 74
>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 = 31.8 bits (73), Expect = 0.008
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 7/49 (14%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
DI K + FV D + A+R + + G N V KS
Sbjct: 38 CDIIK-----NYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKS 81
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 31.9 bits (73), Expect = 0.008
Identities = 8/33 (24%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNL 47
A+V+Y + + +A+ MDG + +V +
Sbjct: 60 LAYVEYENESQASQAVMKMDGMTIKENIIKVAI 92
>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 = 31.8 bits (73), Expect = 0.009
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 7/49 (14%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
DI K +AFV V A+R +D E+ G V L +
Sbjct: 40 CDIVK-----DYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRL 83
>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 = 32.7 bits (75), Expect = 0.010
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+AF +Y DI +A+ ++G +G
Sbjct: 158 YAFCEYVDINVTDQAIAGLNGMQLG 182
Score = 27.3 bits (61), Expect = 0.76
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
FAF+++ + +AM A DG
Sbjct: 53 FAFLEFRSVDETTQAM-AFDG 72
>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 = 31.4 bits (72), Expect = 0.011
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
AF+ + D S RA++ + G + +
Sbjct: 60 VAFILFLDKDSAQNCTRAINNKQLFGRVIKAS 91
>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 = 31.5 bits (72), Expect = 0.012
Identities = 6/38 (15%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV-GHN-RVNLGYGKS 52
+AF+++ A+ + + + G R+ L +
Sbjct: 55 YAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRG 92
>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 = 31.5 bits (72), Expect = 0.013
Identities = 7/41 (17%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKSLAT 55
AF+ + + +A+ ++G + G + G K +
Sbjct: 69 QAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNKKQRS 109
>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 = 32.1 bits (73), Expect = 0.013
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAFV++ D AM AMDG G RV
Sbjct: 114 FAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ 145
>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 = 32.1 bits (74), Expect = 0.014
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+ FV +T AM +M G+ + + + +
Sbjct: 131 YGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINW 163
Score = 27.1 bits (61), Expect = 0.81
Identities = 8/32 (25%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVN 46
+AFV+Y A++ ++G+ + +N ++N
Sbjct: 43 YAFVEYHQSHDANIALQTLNGKQIENNIVKIN 74
>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 = 31.3 bits (71), Expect = 0.015
Identities = 6/35 (17%), Positives = 13/35 (37%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGK 51
A V++ + +A R + H + L +
Sbjct: 48 TAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAP 82
>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 = 31.0 bits (71), Expect = 0.015
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+ F+ ++D RA+ ++G E G RV
Sbjct: 49 YGFITFSDSECARRALEQLNGFELAGRPMRVG 80
>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 = 31.0 bits (71), Expect = 0.017
Identities = 8/33 (24%), Positives = 19/33 (57%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+AF+ + + A+ AM+G+Y+ + + + Y
Sbjct: 50 YAFINFASFDASDAAIEAMNGQYLCNRPITVSY 82
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain,
RNA-protein complex, nucleolus, structural protein/RNA
complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1
d.58.7.1 PDB: 1rkj_A 2krr_A
Length = 175
Score = 31.8 bits (73), Expect = 0.017
Identities = 3/25 (12%), Positives = 10/25 (40%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
A++++ A + + G +
Sbjct: 138 IAYIEFKSEADAEKNLEEKQGAEID 162
Score = 24.9 bits (55), Expect = 4.4
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
F +V + + +A+ + G V N + L K
Sbjct: 56 FGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKG 90
>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 = 31.1 bits (71), Expect = 0.017
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVNLGYGKSL 53
+ FV++ + A+ AM+G + +VN S
Sbjct: 57 YCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTPSS 95
>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 = 31.8 bits (73), Expect = 0.017
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+AF +Y DI +A+ ++G +G
Sbjct: 138 YAFCEYVDINVTDQAIAGLNGMQLG 162
Score = 26.8 bits (60), Expect = 1.1
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
FAF+++ + +AM A DG
Sbjct: 53 FAFLEFRSVDETTQAM-AFDG 72
>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 = 31.0 bits (71), Expect = 0.018
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAFV + ++ A +G E G RV+
Sbjct: 59 FAFVYFENVDDAKEAKERANGMELDGRRIRVS 90
>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 = 32.0 bits (72), Expect = 0.018
Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV-GHN-RVNL 47
FA V AS + M + + G N V
Sbjct: 114 FALVGVGSEASSKKLMDLLPKRELHGQNPVVTP 146
>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 = 30.6 bits (70), Expect = 0.019
Identities = 12/49 (24%), Positives = 17/49 (34%), Gaps = 7/49 (14%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
D+ K +AFV A A+ ++G E G V L
Sbjct: 39 CDVVK-----DYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKGQ 82
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 31.7 bits (71), Expect = 0.020
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
FV++ A+ A AM + + +
Sbjct: 181 CGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRR 216
>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 = 31.2 bits (71), Expect = 0.021
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+ FV + + A++ M G+++G
Sbjct: 59 YGFVSFFNKWDAENAIQQMGGQWLG 83
>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 = 30.6 bits (70), Expect = 0.022
Identities = 7/32 (21%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+A+V++ + +A++ MDG + G
Sbjct: 49 YAYVEFENPDEAEKALKHMDGGQIDGQEITAT 80
>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 = 31.0 bits (70), Expect = 0.026
Identities = 8/53 (15%), Positives = 20/53 (37%), Gaps = 2/53 (3%)
Query: 2 VMYFVDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
+M+ + + K+ AF+ + + +A++ +G G V
Sbjct: 79 IMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQFARSAR 131
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 30.8 bits (69), Expect = 0.030
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 18 AFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
A +QY D S A ++DG+ + + L
Sbjct: 69 ALLQYADPVSAQHAKLSLDGQNIYNACCTL 98
>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 = 31.1 bits (71), Expect = 0.031
Identities = 7/35 (20%), Positives = 15/35 (42%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGK 51
FA ++Y A + DG +G + + + +
Sbjct: 228 FAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCA 262
Score = 29.9 bits (68), Expect = 0.079
Identities = 8/42 (19%), Positives = 15/42 (35%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKSLATTCV 58
AFV + A+ A + +++ + A CV
Sbjct: 59 TAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLCV 100
Score = 29.2 bits (66), Expect = 0.16
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+ F +Y S RA + G+ +G + + +
Sbjct: 139 YGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHW 171
>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 = 30.5 bits (69), Expect = 0.031
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
A V Y D + A+ DG ++ G +V+
Sbjct: 67 DATVSYEDPPTAKAAVEWFDGKDFQGSKLKVS 98
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 31.0 bits (70), Expect = 0.032
Identities = 7/33 (21%), Positives = 11/33 (33%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNL 47
+A V SV + + + G G V
Sbjct: 101 YAEVVVASENSVHKLLELLPGKVLNGEKVDVRP 133
>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 = 30.3 bits (69), Expect = 0.033
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
F FV + +I AM AM+G G RV+
Sbjct: 56 FGFVTFENIDDAKDAMMAMNGKSVDGRQIRVD 87
>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 = 30.4 bits (69), Expect = 0.034
Identities = 7/32 (21%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
+ F+ ++D +A+ ++G E G +V
Sbjct: 70 YGFITFSDSECAKKALEQLNGFELAGRPMKVG 101
>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 = 29.8 bits (68), Expect = 0.036
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+ FV +T AM +M G+ +
Sbjct: 45 YGFVSFTSQDDAQNAMDSMQGQDLN 69
>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 = 30.3 bits (69), Expect = 0.039
Identities = 8/33 (24%), Positives = 16/33 (48%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+ FV + + RA+ M+G + +V +G
Sbjct: 47 YGFVHFETQEAAERAIEKMNGMLLNDRKVFVGR 79
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 30.7 bits (70), Expect = 0.039
Identities = 6/25 (24%), Positives = 13/25 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+ F++Y S A+ +M+ +G
Sbjct: 169 YGFIEYEKAQSSQDAVSSMNLFDLG 193
Score = 29.2 bits (66), Expect = 0.17
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
FAFV+Y + A+ M+
Sbjct: 72 FAFVEYEVPEAAQLALEQMNS 92
>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 = 30.5 bits (69), Expect = 0.040
Identities = 4/31 (12%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
A VQ+ + ++ R + + + +
Sbjct: 59 QALVQFKNEDDARKSER-LHRKKLNGREAFV 88
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 30.5 bits (69), Expect = 0.041
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAFV++ A+ M+ E G RVN
Sbjct: 107 FAFVEFELAEDAAAAIDNMNESELFGRTIRVN 138
>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 = 30.8 bits (70), Expect = 0.043
Identities = 6/32 (18%), Positives = 11/32 (34%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVN 46
F F++ A +DG + R+
Sbjct: 60 FGFIRLESRTLAEIAKAELDGTILKSRPLRIR 91
Score = 25.0 bits (55), Expect = 4.4
Identities = 3/21 (14%), Positives = 7/21 (33%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
FV++ +A+
Sbjct: 139 KGFVEFAAKPPARKALERCGD 159
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 30.4 bits (69), Expect = 0.045
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNR--VNL 47
F FV + + S A++AM+G VG R V L
Sbjct: 84 FGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQL 116
>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 = 29.9 bits (68), Expect = 0.049
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNL 47
F FV+Y +A++ + G GH V +
Sbjct: 52 FGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRI 84
>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 = 29.9 bits (68), Expect = 0.055
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
F FV + A AM+ E G+ ++
Sbjct: 56 FGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLD 87
>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 = 30.3 bits (69), Expect = 0.060
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV 40
FV + + + A A+ V
Sbjct: 49 CCFVTFYTRKAALEAQNALHNMKV 72
Score = 28.3 bits (64), Expect = 0.27
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV 40
AFV +T A A++AM
Sbjct: 138 CAFVTFTTRAMAQTAIKAMHQAQT 161
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 29.6 bits (67), Expect = 0.067
Identities = 10/32 (31%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
F FV + + A RA + G G VN
Sbjct: 71 FGFVTFENSADADRAREKLHGTVVEGRKIEVN 102
>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 = 29.6 bits (67), Expect = 0.068
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
FAF+ + + A A + M+G+ +
Sbjct: 50 FAFITFENPADAKNAAKDMNGKSLH 74
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 29.3 bits (66), Expect = 0.069
Identities = 7/38 (18%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDGE--YVGHNRVNLGYGKS 52
A V++ D+ A+ Y+ + + Y S
Sbjct: 59 QALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTS 96
>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 = 29.5 bits (67), Expect = 0.073
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVN 46
FAF+ + RA+ + G H V
Sbjct: 59 FAFISFHRREDAARAIAGVSGFGYDHLILNVE 90
>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 = 29.1 bits (66), Expect = 0.076
Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FA V AS + M + E G N V
Sbjct: 47 FALVGVGSEASSKKLMDLLPKRELHGQNPVVT 78
>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 = 29.0 bits (66), Expect = 0.081
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAFV++ A+ M+ E G RVN
Sbjct: 51 FAFVEFELAEDAAAAIDNMNESELFGRTIRVN 82
>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 = 29.0 bits (66), Expect = 0.082
Identities = 4/21 (19%), Positives = 11/21 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
+ FV + ++ +A+ A+
Sbjct: 49 YGFVDFDSPSAAQKAVTALKA 69
>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 = 29.2 bits (66), Expect = 0.091
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNR--VNLGYGKS 52
F FV Y + S A+++M+G +G R V L K+
Sbjct: 69 FGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKN 106
>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 = 29.2 bits (66), Expect = 0.092
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV 40
AF+ Y + S ++A A+ +
Sbjct: 57 CAFLTYCERESALKAQSALHEQKT 80
>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 = 29.4 bits (66), Expect = 0.094
Identities = 7/39 (17%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 9 KKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
A+ FV++ + A A+ +Y+G+ + +
Sbjct: 61 GPNGKATGEGFVEFRNEADYKAAL-CRHKQYMGNRFIQV 98
>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 = 29.1 bits (66), Expect = 0.095
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
F FV + SV A+ ++G
Sbjct: 59 FGFVCFKHPESVSYAIALLNG 79
>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 = 28.9 bits (65), Expect = 0.098
Identities = 9/32 (28%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAF+++ + +AM A DG + G + ++
Sbjct: 55 FAFLEFRSVDETTQAM-AFDGIIFQGQSLKIR 85
>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 = 28.7 bits (65), Expect = 0.11
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
FAFV++ A+ M+ E G RVN
Sbjct: 56 FAFVEFELAEDAAAAIDNMNESELFGRTIRVN 87
>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 = 29.3 bits (66), Expect = 0.12
Identities = 7/33 (21%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVNL 47
+ FV++ +S +A+ ++G + + +V L
Sbjct: 86 YGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL 118
>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 = 28.9 bits (65), Expect = 0.13
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
A V + A ++AM+ G
Sbjct: 78 TADVHFERRADALKAMKQYKG 98
>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 = 29.6 bits (67), Expect = 0.13
Identities = 4/33 (12%), Positives = 11/33 (33%), Gaps = 2/33 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVNL 47
FA++ T + ++G + +
Sbjct: 161 FAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKV 193
Score = 28.0 bits (63), Expect = 0.37
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN--RVNLGYGK 51
AF+ + + S RA+ M+ +G+ V+L K
Sbjct: 256 CAFMVFENKDSAERAL-QMNRSLLGNREISVSLADKK 291
Score = 25.7 bits (57), Expect = 2.3
Identities = 7/44 (15%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKSLATTCVWV 60
FA +++ + A+ VG N + + + +W+
Sbjct: 83 FARIEFARYDGALAAITKTHK-VVGQNEIIVSHLTE---CTLWM 122
>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 = 28.8 bits (65), Expect = 0.14
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
+ FV++ A++ MD
Sbjct: 59 YGFVEFLSEEDADYAIKIMDM 79
>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 = 28.8 bits (65), Expect = 0.14
Identities = 10/32 (31%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVN 46
F FV + + A RA + G G VN
Sbjct: 57 FGFVTFENSADADRAREKLHGTVVEGRKIEVN 88
>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 = 28.7 bits (64), Expect = 0.15
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
++F +Y RA ++G
Sbjct: 65 YSFARYRTTEESKRAYVTLNG 85
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin
modification, transcription regulation, structural
genomics, structural genomics consortium; 1.30A {Homo
sapiens}
Length = 110
Score = 28.5 bits (64), Expect = 0.15
Identities = 4/24 (16%), Positives = 8/24 (33%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV 40
A V +T ++ + V
Sbjct: 50 LARVLFTSTRGAKETVKNLHLTSV 73
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics,
joint center for struc genomics, JCSG, protein
structure initiative, PSI-biology; HET: MSE CIT; 0.95A
{Mus musculus} PDB: 2lq5_A
Length = 114
Score = 28.8 bits (65), Expect = 0.16
Identities = 9/37 (24%), Positives = 17/37 (45%)
Query: 13 SASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
SA +V+ IA+ + A+ A+ G + + Y
Sbjct: 53 SAQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAY 89
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 28.4 bits (64), Expect = 0.17
Identities = 7/40 (17%), Positives = 16/40 (40%), Gaps = 4/40 (10%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN----RVNLGYGKS 52
FAFVQ + + ++ + + + + + KS
Sbjct: 55 FAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94
>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 = 28.4 bits (64), Expect = 0.17
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV 40
AFV+++ A+ A+ G
Sbjct: 58 CAFVKFSSHTEAQAAIHALHGSQT 81
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 28.2 bits (63), Expect = 0.21
Identities = 7/44 (15%), Positives = 18/44 (40%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+ S +A V Y+ +A+ ++G + + + + Y
Sbjct: 45 CEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAY 88
>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 96
Score = 28.1 bits (62), Expect = 0.21
Identities = 10/40 (25%), Positives = 19/40 (47%)
Query: 18 AFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKSLATTC 57
A +++ + S RA + M+ E V NR+ + + C
Sbjct: 49 AILRFINQDSAERAQKRMENEDVFGNRIIVSFTPKNRELC 88
>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 = 28.7 bits (65), Expect = 0.23
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+AFV +T RA++ ++G V + R+ + Y
Sbjct: 47 YAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSY 79
Score = 28.3 bits (64), Expect = 0.28
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV-GHNR 44
AFV+Y A+ A++ G ++
Sbjct: 133 VAFVRYNKREEAQEAISALNNVIPEGGSQ 161
>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 = 28.0 bits (62), Expect = 0.23
Identities = 6/47 (12%), Positives = 19/47 (40%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
V++ + A VQ ++ + A+ ++ +G ++ +
Sbjct: 43 VELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLATG 89
>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 = 27.9 bits (63), Expect = 0.26
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
F FV ++ +A+ M+G V
Sbjct: 57 FGFVCFSSPEEATKAVTEMNGRIVA 81
>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 = 28.2 bits (63), Expect = 0.26
Identities = 7/38 (18%), Positives = 13/38 (34%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDGE--YVGHNRVNLGYGKS 52
A V++ +I S + Y+ + Y S
Sbjct: 53 QALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTS 90
>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 = 28.0 bits (63), Expect = 0.28
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
A V + A ++AM+ +G
Sbjct: 72 TADVHFERKADALKAMKQYNG 92
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 27.6 bits (62), Expect = 0.30
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNR 44
+ FV++TD RA+ G ++
Sbjct: 53 YGFVKFTDELEQKRALTECQGAVGLGSK 80
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 27.4 bits (61), Expect = 0.32
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN---RVN 46
+ F++Y A V A++ DG + RVN
Sbjct: 49 YIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN 81
>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 = 27.9 bits (62), Expect = 0.34
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 9 KKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
+ + AFVQ+ +A+ E +GH + +
Sbjct: 78 DPEGKITGEAFVQFASQELAEKALG-KHKERIGHRYIEV 115
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline,
PPII helix, peptide recognition, RNA binding protein;
2.20A {Homo sapiens} SCOP: d.58.7.3
Length = 104
Score = 27.5 bits (61), Expect = 0.36
Identities = 2/33 (6%), Positives = 12/33 (36%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+V++ +A+ ++ + ++
Sbjct: 70 NVYVKFRREEDAEKAVIDLNNRWFNGQPIHAEL 102
>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 = 27.9 bits (63), Expect = 0.37
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
+ FV Y D +A+ ++G + + + Y
Sbjct: 46 YGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSY 78
Score = 27.2 bits (61), Expect = 0.63
Identities = 4/29 (13%), Positives = 12/29 (41%), Gaps = 1/29 (3%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYV-GHNR 44
F+++ A++ ++G+ G
Sbjct: 132 VGFIRFDKRIEAEEAIKGLNGQKPSGATE 160
>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 = 27.3 bits (61), Expect = 0.42
Identities = 5/25 (20%), Positives = 16/25 (64%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
+ FV++ D+A+ + + ++G+ +
Sbjct: 54 YCFVEFADLATAEKCLHKINGKPLP 78
>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 = 27.1 bits (61), Expect = 0.44
Identities = 8/32 (25%), Positives = 14/32 (43%), Gaps = 4/32 (12%)
Query: 17 FAFVQYTDIASVVRAMRAM----DGEYVGHNR 44
F F+ + D ASV + + DG + +
Sbjct: 55 FGFILFKDAASVEKVLDQKEHRLDGRVIDPKK 86
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 27.4 bits (61), Expect = 0.45
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN---RVNL 47
+ F++Y A V A++ DG + RVNL
Sbjct: 63 YIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNL 96
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 27.4 bits (61), Expect = 0.46
Identities = 6/40 (15%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRV 45
+ + + A V + D ++ +DG + G ++
Sbjct: 56 LLLFDRHPD-GVASVSFRDPEEADYCIQTLDGRWFGGRQI 94
>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 = 27.3 bits (61), Expect = 0.49
Identities = 5/22 (22%), Positives = 9/22 (40%)
Query: 17 FAFVQYTDIASVVRAMRAMDGE 38
AF Q+ + + + A E
Sbjct: 59 CAFAQFMTQEAAQKCLAAASLE 80
>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 = 27.0 bits (60), Expect = 0.52
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 9 KKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
Q ++ AFVQ+ +A++ E +GH + +
Sbjct: 51 DFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEI 88
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 101
Score = 27.2 bits (61), Expect = 0.55
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHNRVNLGYGKS 52
F +V + + +A+ + G V N + L K
Sbjct: 60 FGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKG 94
>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 = 27.1 bits (60), Expect = 0.69
Identities = 7/31 (22%), Positives = 11/31 (35%)
Query: 7 DIKKQSSASAFAFVQYTDIASVVRAMRAMDG 37
+ FAFV+Y + A R +
Sbjct: 44 SAADKMKNRGFAFVEYESHRAAAMARRKLMP 74
>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 = 27.0 bits (60), Expect = 0.69
Identities = 3/36 (8%), Positives = 10/36 (27%), Gaps = 1/36 (2%)
Query: 10 KQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRV 45
+ V++ A++ + + V
Sbjct: 51 HVGRNNGNGLVKFLSPQDTFEALK-RNRMLMIQRYV 85
>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 = 26.5 bits (59), Expect = 0.80
Identities = 7/39 (17%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 9 KKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
+ + + FV +++ V +A++ + EY+G + +
Sbjct: 44 NAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEV 81
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 26.6 bits (59), Expect = 0.87
Identities = 5/26 (19%), Positives = 9/26 (34%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGH 42
FV + I S + + +Y
Sbjct: 54 SIFVVFDSIESAKKFVETPGQKYKET 79
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 26.5 bits (59), Expect = 0.92
Identities = 8/38 (21%), Positives = 13/38 (34%), Gaps = 2/38 (5%)
Query: 6 VDIKKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHN 43
V + K FA V+ D+ + + GH
Sbjct: 38 VVMDKDKGV--FAIVEMGDVGAREAVLSQSQHSLGGHR 73
>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 = 26.7 bits (60), Expect = 1.1
Identities = 7/31 (22%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 17 FAFVQYTDIASVVRAMRAM---DGEYVGHNR 44
F F+ + +SV ++ DG+ + R
Sbjct: 47 FGFLSFEKPSSVDEVVKTQHILDGKVIDPKR 77
>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 = 26.5 bits (59), Expect = 1.1
Identities = 4/25 (16%), Positives = 10/25 (40%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
V + V+A+ +G+ +
Sbjct: 58 IGTVTFEQSIEAVQAISMFNGQLLF 82
>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 = 26.2 bits (58), Expect = 1.1
Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 7/55 (12%)
Query: 5 FVDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKSLATTC 57
+VD K+ AFV + A++ + G + V L +L +
Sbjct: 35 YVDRNKR-----TAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDALLCSG 84
>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 = 26.2 bits (58), Expect = 1.1
Identities = 10/39 (25%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 9 KKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
+ A V++ V AM A D + H V L
Sbjct: 49 GPDGRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVEL 86
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 26.7 bits (59), Expect = 1.1
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 17 FAFVQYTDIASVVRAMRAMDG 37
A V + A ++AM+ G
Sbjct: 131 TADVHFERRADALKAMKQYKG 151
>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 = 26.5 bits (59), Expect = 1.2
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN-RVNL 47
+ FV D A+ RA + + G VNL
Sbjct: 61 YGFVTMADRAAAERACKDPNPIIDGRKANVNL 92
>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 = 26.0 bits (58), Expect = 1.2
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 17 FAFVQYTDIASVVRAMRAM 35
F FV++T+ + V+ M
Sbjct: 59 FGFVRFTEYETQVKVMSQR 77
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome
biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae}
PDB: 2osr_A
Length = 111
Score = 26.3 bits (58), Expect = 1.2
Identities = 5/39 (12%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 5 FVDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGH 42
F + + +++ +V A+ ++ E+ G
Sbjct: 58 FSSVNTRDF-DGTGALEFPSEEILVEALERLNNIEFRGS 95
>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding
protein, RNA splicing, structural GENO joint center for
structural genomics, JCSG; HET: MSE; 1.80A {Mus
musculus} PDB: 1o0p_A 1opi_A
Length = 105
Score = 26.3 bits (58), Expect = 1.3
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 18 AFVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
FV++T + +AM+ + G + V Y
Sbjct: 62 IFVEFTSVFDCQKAMQGLTGRKFANRVVVTKY 93
>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 = 26.1 bits (58), Expect = 1.4
Identities = 5/19 (26%), Positives = 8/19 (42%)
Query: 17 FAFVQYTDIASVVRAMRAM 35
F FV + +A A+
Sbjct: 60 FGFVDFITKQDAKKAFNAL 78
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 25.6 bits (57), Expect = 1.5
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN-RVNLGYGKS 52
V++ RA R M+G + G V + S
Sbjct: 50 CGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRNAS 87
>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 = 26.3 bits (58), Expect = 1.5
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGH 42
A V++ V AM + D + H
Sbjct: 88 EADVEFATHEEAVAAM-SKDRANMQH 112
>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM,
RNA binding domain, ST genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.23A {Homo
sapiens} PDB: 3us5_A 2dny_A
Length = 118
Score = 25.9 bits (57), Expect = 1.7
Identities = 6/31 (19%), Positives = 17/31 (54%)
Query: 19 FVQYTDIASVVRAMRAMDGEYVGHNRVNLGY 49
FV+++ + +A++A++G + +V
Sbjct: 75 FVEFSIASETHKAIQALNGRWFAGRKVVAEV 105
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 123
Score = 26.0 bits (57), Expect = 1.7
Identities = 6/39 (15%), Positives = 12/39 (30%), Gaps = 1/39 (2%)
Query: 9 KKQSSASAFAFVQYTDIASVVRAMRAMDGEYVGHNRVNL 47
+ AFV + A+ + +G + L
Sbjct: 62 YPDGRPTGDAFVLFACEEYAQNAL-RKHKDLLGKRYIEL 99
>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 = 25.7 bits (57), Expect = 1.9
Identities = 2/25 (8%), Positives = 8/25 (32%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVG 41
F + + +G+++
Sbjct: 68 VGFARMESTEKCEAVIGHFNGKFIK 92
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 25.5 bits (56), Expect = 2.0
Identities = 4/34 (11%), Positives = 13/34 (38%), Gaps = 3/34 (8%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGHN---RVNL 47
F FV+ + + +++ G+ + +
Sbjct: 56 FLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYT 89
>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 = 25.9 bits (56), Expect = 2.3
Identities = 5/26 (19%), Positives = 9/26 (34%)
Query: 17 FAFVQYTDIASVVRAMRAMDGEYVGH 42
FV + I S + + +Y
Sbjct: 152 SIFVVFDSIESAKKFVETPGQKYKET 177
>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 = 25.3 bits (56), Expect = 2.9
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 17 FAFVQYTDIASVVRAMRA 34
F FV Y + V AM A
Sbjct: 57 FGFVTYATVEEVDAAMNA 74
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1
Length = 77
Score = 24.4 bits (54), Expect = 4.0
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 17 FAFVQYTDIASVVRAMRA 34
F FV + D A V + +
Sbjct: 44 FGFVTFMDQAGVDKVLAQ 61
>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 = 24.8 bits (54), Expect = 4.4
Identities = 6/40 (15%), Positives = 16/40 (40%), Gaps = 5/40 (12%)
Query: 5 FVDIKKQSSASAFAFVQYTDIASVVRAMRAMDG-EYVGHN 43
+ D+ + V++ + A+R +D ++ H
Sbjct: 44 YADVYRDG----TGVVEFVRKEDMTYAVRKLDNTKFRSHE 79
>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 = 24.5 bits (54), Expect = 4.9
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 17 FAFVQYTDIASVVRAMRA 34
F FV + D A V + +
Sbjct: 69 FGFVTFMDQAGVDKVLAQ 86
>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 = 24.5 bits (54), Expect = 4.9
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 17 FAFVQYTDIASVVRAMRA 34
F FV ++ +A V AM A
Sbjct: 71 FGFVTFSSMAEVDAAMAA 88
>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 = 24.5 bits (54), Expect = 5.0
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 17 FAFVQYTDIASVVRAMRA 34
F FV++ D V + +
Sbjct: 60 FGFVKFKDPNCVGTVLAS 77
>1e8g_A Vanillyl-alcohol oxidase; oxidoreductase, flavoenzyme, specificity;
HET: FAD FCR; 2.1A {Penicillium simplicissimum} SCOP:
d.58.32.1 d.145.1.1 PDB: 1e8f_A* 1e8h_A* 1qlt_A* 1qlu_A*
1vao_A* 1ahv_A* 1ahz_A* 1ahu_A* 2vao_A* 1w1j_A* 1dzn_A*
1w1l_A* 1e0y_A* 1w1k_A* 1w1m_A*
Length = 560
Score = 24.8 bits (54), Expect = 5.9
Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 64 AGKCGTGEHNRVNLGYGKSLATTCVWVDGVA 94
G GE+ R +L + + T W +
Sbjct: 495 CAANGWGEY-RTHLAFMDQIMETYNWNNSSF 524
>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 = 24.0 bits (52), Expect = 7.5
Identities = 5/28 (17%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 17 FAFVQYTDIASVVRAMRAMDG-EYVGHN 43
V++ + A+R +D ++ H
Sbjct: 53 TGVVEFVRKEDMTYAVRKLDNTKFRSHE 80
>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP,
50S subunit, cryo-EM, REAL-space refinement,
ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H
Length = 704
Score = 24.4 bits (54), Expect = 8.7
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 52 SLATTCVWVDGVAGKCGTGEHNRVNL 77
S ATT W +G E +R+N+
Sbjct: 65 SAATTAFW----SGMAKQYEPHRINI 86
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
0.321 0.134 0.422
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: 1,510,482
Number of extensions: 78443
Number of successful extensions: 308
Number of sequences better than 10.0: 1
Number of HSP's gapped: 308
Number of HSP's successfully gapped: 184
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.4 bits)