RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10279
(80 letters)
>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 = 82.0 bits (203), Expect = 2e-22
Identities = 40/47 (85%), Positives = 45/47 (95%)
Query: 10 VRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
+RLPPEVNR+LYIRNLPYKIT +EMYDIFGKYG IRQIR+GNTP+TR
Sbjct: 1 IRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETR 47
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 56.4 bits (136), Expect = 3e-12
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 13 PPEVNRVLYIRNLPYKITGDEM----YDIFGKYGAIRQIRIGNTPDTR 56
E ++V+ I N+ ++ +++ Y + G I I + + D
Sbjct: 25 HTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNS 72
>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 = 54.5 bits (132), Expect = 8e-12
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 13 PPEV--NRVLYIRNLPYKITGDEM----YDIFGKYGAIRQIRIGNTPDTR 56
PE N +YI NL KI DE+ + IF ++G I I + + R
Sbjct: 2 VPETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMR 51
>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 = 51.7 bits (124), Expect = 2e-10
Identities = 8/46 (17%), Positives = 20/46 (43%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S + V+ V+++R L + ++ + K+G I + +
Sbjct: 2 SSGSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMM 47
>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 = 49.8 bits (119), Expect = 6e-10
Identities = 12/46 (26%), Positives = 24/46 (52%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S + ++ +RVL+IR LP ++T E+ + +G + I +
Sbjct: 2 SSGSSGDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILM 47
>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 = 48.4 bits (116), Expect = 3e-09
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
P E N+VLY++NL ++T ++ +F ++ + I
Sbjct: 21 PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPI 57
>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 = 48.3 bits (115), Expect = 3e-09
Identities = 7/33 (21%), Positives = 18/33 (54%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
V+ +NLP E+ + F ++G++ ++ +
Sbjct: 10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLL 42
>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 = 48.6 bits (116), Expect = 3e-09
Identities = 15/56 (26%), Positives = 23/56 (41%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
M R R P+ N L + L T ++ ++F KYG I + I +R
Sbjct: 30 MGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSR 85
>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 = 48.1 bits (115), Expect = 3e-09
Identities = 17/55 (30%), Positives = 24/55 (43%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
MS + +Y+ NLP I ++ D+F KYGAIR I + N
Sbjct: 7 GMSGGGVIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGP 61
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 47.8 bits (113), Expect = 8e-09
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 5 QRRANVRLPPEVNRVL--YIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
R N P N+VL I+N Y IT D +Y + G +++I I +
Sbjct: 11 TRPGNTDDPSGGNKVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKRNGIQ 64
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif,
U11/U12-65K protein, DI-snRNP, U1A protein, U2B
protein; 2.50A {Homo sapiens}
Length = 143
Score = 47.5 bits (113), Expect = 1e-08
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRYLTKSLVMKCMIFLV 71
P E N +Y++NL + ++ IFG+Y D R L K MK F+
Sbjct: 41 PGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIR-LMKEGRMKGQAFIG 98
>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 = 47.2 bits (112), Expect = 1e-08
Identities = 10/48 (20%), Positives = 21/48 (43%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ R +RV++IR LP +T E+ + +G + + +
Sbjct: 16 PRGSHMGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLM 63
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 46.3 bits (110), Expect = 1e-08
Identities = 6/36 (16%), Positives = 17/36 (47%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ V++IR L + ++ + ++G I + +
Sbjct: 18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVV 53
>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 = 46.0 bits (110), Expect = 2e-08
Identities = 14/53 (26%), Positives = 23/53 (43%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
S + R P+ N L + L T ++ ++F KYG I + I +R
Sbjct: 2 SSGSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSR 54
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 45.8 bits (109), Expect = 3e-08
Identities = 9/42 (21%), Positives = 23/42 (54%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ ++IRNL + + + ++ ++G ++ +R+ PDT
Sbjct: 12 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDT 53
>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 = 46.8 bits (110), Expect = 5e-08
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 17 NRVLYIRNLPYKITGDEM----YDIFGKYGAIRQIRIGNTPDTR 56
N +YI NL KI DE+ Y IF ++G I I + + R
Sbjct: 9 NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMR 52
Score = 31.4 bits (70), Expect = 0.019
Identities = 9/49 (18%), Positives = 21/49 (42%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
M A N +L++ NLP + + +F ++ +++R+
Sbjct: 191 MPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRL 239
>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 = 44.6 bits (106), Expect = 8e-08
Identities = 8/46 (17%), Positives = 23/46 (50%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S + + + +RN+P++ E+ ++F +G ++ +R+
Sbjct: 2 SSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRL 47
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin
modification, transcription regulation, structural
genomics, structural genomics consortium; 1.30A {Homo
sapiens}
Length = 110
Score = 44.3 bits (105), Expect = 1e-07
Identities = 10/44 (22%), Positives = 18/44 (40%), Gaps = 2/44 (4%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
P + + L + + D+ KYG + ++ I P TR
Sbjct: 4 IP--LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTR 45
>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 = 44.1 bits (105), Expect = 1e-07
Identities = 9/37 (24%), Positives = 20/37 (54%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
L++RNL Y + +++ +F YG + ++ T+
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTK 47
>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 = 44.3 bits (105), Expect = 1e-07
Identities = 9/43 (20%), Positives = 19/43 (44%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
N +Y++ L +T D++ D F + G ++ + P
Sbjct: 12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIH 54
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 44.1 bits (104), Expect = 1e-07
Identities = 9/39 (23%), Positives = 19/39 (48%)
Query: 11 RLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+RV++IR LP +T E+ + +G + + +
Sbjct: 10 HGSGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLM 48
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 124
Score = 44.4 bits (105), Expect = 1e-07
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 5 QRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIR-QIRIGNTPDTR 56
Q+R+ R P E +Y++ LP++ + D F K + I I P+ +
Sbjct: 13 QKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGK 65
>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 = 43.4 bits (103), Expect = 2e-07
Identities = 8/39 (20%), Positives = 17/39 (43%)
Query: 11 RLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ + L++ N+ T E+ F +YG + + I
Sbjct: 4 GSSGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDI 42
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 43.6 bits (103), Expect = 2e-07
Identities = 10/40 (25%), Positives = 17/40 (42%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRY 57
R L IRN+P + + + + +YG + NT
Sbjct: 16 RKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETA 55
>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 = 43.0 bits (102), Expect = 2e-07
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
LY+ L IT ++ + F ++G IR I +
Sbjct: 12 ITTLYVGGLGDTITETDLRNHFYQFGEIRTITV 44
>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 = 43.1 bits (102), Expect = 2e-07
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQ-IRIGNTPDTR 56
V+ ++N+P+ ++ DE+ D F Y I + +
Sbjct: 12 KPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGM 55
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 43.1 bits (102), Expect = 2e-07
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIG 50
P YI N+P+ T ++ +F +G I +
Sbjct: 24 PPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY 60
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 43.4 bits (103), Expect = 2e-07
Identities = 10/33 (30%), Positives = 21/33 (63%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
N L++R P + E+ +IFG +G +++++I
Sbjct: 31 NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI 63
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 43.5 bits (103), Expect = 3e-07
Identities = 8/40 (20%), Positives = 18/40 (45%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
N ++++ L +T + + D F + G I+ + P
Sbjct: 7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMIN 46
>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 = 42.7 bits (101), Expect = 3e-07
Identities = 8/40 (20%), Positives = 18/40 (45%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTP 53
N ++++ L +T + + D F + G I+ + P
Sbjct: 10 HSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQP 49
>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and
splicing factor,...; protein-RNA complex RRM alpha-beta
sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR
{Streptococcus SP} PDB: 2i38_A
Length = 150
Score = 43.7 bits (103), Expect = 3e-07
Identities = 11/53 (20%), Positives = 20/53 (37%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTP 53
+ R ++ +Y+ NL E+ FG YG +R + + P
Sbjct: 57 GSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP 109
>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 = 42.7 bits (101), Expect = 4e-07
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQ-IRIGNTPDTR 56
++ ++N+P+ ++ DE+ D F Y I + +
Sbjct: 15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGM 55
>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 = 42.6 bits (101), Expect = 4e-07
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L+I NLP + T E+ +F +YG + + I
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDI 40
>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 = 42.6 bits (101), Expect = 4e-07
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRYLTKS 61
L+I+NL + T + + +F K GAI+ I + + S
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLS 49
>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 = 42.2 bits (100), Expect = 6e-07
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 11 RLPPEVNRV--LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
P+V+ + L + NL Y+ + D + +F KYG + + I P T+
Sbjct: 5 SSGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTK 52
>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 = 41.9 bits (99), Expect = 6e-07
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIR 48
R L +NL + IT DE+ ++F IR +
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLVS 47
>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 = 42.0 bits (99), Expect = 7e-07
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
S + +++R LPY+ T +++Y+ F +R + I PD R
Sbjct: 2 SSGSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSPLNPMR-VHIEIGPDGR 53
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 41.9 bits (99), Expect = 7e-07
Identities = 10/37 (27%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
E ++ L+I LP+ T +E+ +I +G ++ +R+
Sbjct: 14 SLEKHK-LFISGLPFSCTKEELEEICKAHGTVKDLRL 49
>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 = 41.4 bits (98), Expect = 8e-07
Identities = 5/37 (13%), Positives = 15/37 (40%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+++ N+ T E+ +F + G + + +
Sbjct: 5 SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDV 41
>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 = 41.5 bits (98), Expect = 9e-07
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 13 PPEVNRVLYIRNLPY-KITGDEMYDIFGKYGAIRQIRI 49
+ L+I NLP ++ ++++ IF YG I QI I
Sbjct: 18 GSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI 55
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding
protein; NMR {Homo sapiens}
Length = 101
Score = 41.9 bits (99), Expect = 9e-07
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTP 53
+Y+ NL E+ F YG +R + I P
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNP 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 = 41.5 bits (98), Expect = 9e-07
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L++ L + + F ++G+IR I
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDH 49
>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 = 43.0 bits (102), Expect = 9e-07
Identities = 8/46 (17%), Positives = 14/46 (30%), Gaps = 2/46 (4%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S N L+I NL + E+ + A + +
Sbjct: 2 SHMVEGSESTTPFN--LFIGNLNPNKSVAELKVAISELFAKNDLAV 45
Score = 41.8 bits (99), Expect = 2e-06
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIR 48
+ R + ++ L +NL + IT DE+ ++F IR +
Sbjct: 88 PKGRDSKKVRAART--LLAKNLSFNITEDELKEVFEDALEIRLVS 130
>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 = 41.5 bits (98), Expect = 9e-07
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L++ NLP IT +EM +F KYG ++ I
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI 47
>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 = 42.5 bits (100), Expect = 1e-06
Identities = 12/56 (21%), Positives = 23/56 (41%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
+ + + E L + NL Y+ + D + +F KYG + + I T+
Sbjct: 54 VTEGSHHHHHHMDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK 109
>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 = 41.6 bits (98), Expect = 1e-06
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 1 MAMSQRRANVRL---PPEVNRVLYIRNLPY-KITGDEMYDIFGKYGAIRQIRI 49
M++ + +NV P +N ++I NL + ++ IF KYG + +
Sbjct: 8 MSLKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV 60
>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 = 43.1 bits (102), Expect = 1e-06
Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITG-DEMYDIFGKYGAIRQIRI 49
++ R + IRNL ++ + + + F +G+I +I I
Sbjct: 197 LEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINI 243
Score = 38.8 bits (91), Expect = 3e-05
Identities = 7/30 (23%), Positives = 15/30 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ ++NLP +++Y F G I + +
Sbjct: 44 VLVKNLPKSYNQNKVYKYFKHCGPIIHVDV 73
Score = 37.7 bits (88), Expect = 1e-04
Identities = 5/35 (14%), Positives = 12/35 (34%)
Query: 10 VRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAI 44
+ + L++ N P T + D+ +
Sbjct: 110 IIVSHLTECTLWMTNFPPSYTQRNIRDLLQDINVV 144
>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wi6_A
Length = 88
Score = 40.9 bits (96), Expect = 1e-06
Identities = 8/43 (18%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRYLT 59
+ + ++NLP E++D+ Y ++ + T ++T
Sbjct: 5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDRNKRTAFVT 46
>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 = 41.1 bits (97), Expect = 2e-06
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIR 45
S + ++ L + NL Y T + + ++F K I+
Sbjct: 2 SSGSSGNSTWSGESKTLVLSNLSYSATEETLQEVFEKATFIK 43
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 41.6 bits (97), Expect = 2e-06
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 13 PPEVNRVL--YIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ VL + NL Y +T D ++ IF K+G + +I +
Sbjct: 22 MAGQSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQ 66
>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 = 42.1 bits (99), Expect = 2e-06
Identities = 12/51 (23%), Positives = 25/51 (49%)
Query: 6 RRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
+ + LY+ NL + T +++Y++F K G I++I +G +
Sbjct: 28 DNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKK 78
>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 = 41.1 bits (97), Expect = 2e-06
Identities = 5/30 (16%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L++ L + + +++ +F +G I + +
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTV 47
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 40.7 bits (96), Expect = 2e-06
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
++LY+RNL + + + F R+
Sbjct: 15 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERV 47
>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 = 41.2 bits (97), Expect = 2e-06
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R +Y+ N+ Y T ++ F G+I +I I
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITI 68
>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 = 40.7 bits (96), Expect = 2e-06
Identities = 8/40 (20%), Positives = 17/40 (42%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
R LY+ NL +T + +F + G + ++ +
Sbjct: 15 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN 54
>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 = 40.8 bits (96), Expect = 2e-06
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
N +Y + +T M F +G I +IR+
Sbjct: 25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRV 57
>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 = 41.6 bits (97), Expect = 2e-06
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 13 PPEVNRVL--YIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ VL + NL Y +T D ++ IF K+G + +I +
Sbjct: 40 MAGQSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQ 84
>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 = 41.9 bits (98), Expect = 2e-06
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 5 QRRANVRLPPEVNRVLYIRNL-PYKITGDEMYDIFGKYGAIRQIRI 49
R A L N VL + NL P ++T ++ +FG YG +++++I
Sbjct: 22 GRIAIPGLAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKI 67
Score = 36.9 bits (85), Expect = 2e-04
Identities = 5/33 (15%), Positives = 17/33 (51%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ L++ N+P ++ +++ +F G + +
Sbjct: 151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFK 183
>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 = 40.2 bits (95), Expect = 3e-06
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 1/37 (2%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ LYIR L T ++ + YG I +
Sbjct: 2 SSGSSG-LYIRGLQPGTTDQDLVKLCQPYGKIVSTKA 37
>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 = 40.3 bits (95), Expect = 3e-06
Identities = 8/37 (21%), Positives = 22/37 (59%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
E +R +++ NL ++ + +Y++F + G + ++ I
Sbjct: 12 QEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTI 48
>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 = 41.2 bits (96), Expect = 5e-06
Identities = 8/34 (23%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 17 NRVLYIRNL-PYKITGDEMYDIFGKYGAIRQIRI 49
+ VL + L K+ D ++++F YG + +++
Sbjct: 4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKF 37
Score = 35.1 bits (80), Expect = 9e-04
Identities = 8/39 (20%), Positives = 17/39 (43%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ VL+ N P ++T + ++I + G R +
Sbjct: 123 SNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK 161
>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex,
mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB:
2x1b_A 2x1a_A 2km8_B
Length = 96
Score = 39.9 bits (94), Expect = 5e-06
Identities = 10/38 (26%), Positives = 22/38 (57%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
RV+Y+ ++PY T +++ D+ G + +++ P T
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQT 40
>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 = 40.1 bits (94), Expect = 5e-06
Identities = 7/54 (12%), Positives = 18/54 (33%), Gaps = 1/54 (1%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQ-IRIGNTPDTR 56
S + + + +R LP+ + +E+ F + + + R
Sbjct: 2 SSGSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGR 55
>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 = 40.6 bits (95), Expect = 5e-06
Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
M + + +++R LPYK T +++Y+ F +R + I PD R
Sbjct: 30 MGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLNPVR-VHIEIGPDGR 84
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 123
Score = 40.3 bits (94), Expect = 5e-06
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 4/59 (6%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIR----QIRIGNTPDTR 56
+ L E ++ +R LP+ T +E+ FG++ I I PD R
Sbjct: 8 GGTSNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGR 66
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 39.7 bits (93), Expect = 5e-06
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPD 54
NR +YI+ P T D++ + G + I++ T
Sbjct: 11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH 48
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 39.5 bits (93), Expect = 5e-06
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+++RNLP+ T + D F + G + I
Sbjct: 11 IFVRNLPFDFTWKMLKDKFNECGHVLYADI 40
>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 = 39.5 bits (93), Expect = 5e-06
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
RLP ++ NLPY +T + + + F I +R+
Sbjct: 6 HHHHHRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRL 50
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 40.1 bits (94), Expect = 6e-06
Identities = 13/53 (24%), Positives = 21/53 (39%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
S E L + NL Y+ + D + +F KYG + + I T+
Sbjct: 34 SMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK 86
>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 = 39.4 bits (93), Expect = 6e-06
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
++I L +T D + +IF YG I+ I +
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDM 36
>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 = 40.0 bits (94), Expect = 6e-06
Identities = 10/40 (25%), Positives = 20/40 (50%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
R ++ L +I ++ D F G +R +RI + ++R
Sbjct: 25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSR 64
>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 = 39.5 bits (93), Expect = 6e-06
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+Y+ NLP+ +T +++Y IF KYG + ++ I
Sbjct: 13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTI 48
>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 = 40.7 bits (95), Expect = 7e-06
Identities = 12/34 (35%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 17 NRVLYIRNL-PYKITGDEMYDIFGKYGAIRQIRI 49
N VL + NL P ++T ++ +FG YG +++++I
Sbjct: 3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKI 36
Score = 34.9 bits (80), Expect = 8e-04
Identities = 6/46 (13%), Positives = 19/46 (41%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
N + + L++ N+P ++ +++ +F G + +
Sbjct: 107 KPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFK 152
>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 = 39.6 bits (93), Expect = 7e-06
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S + RLP ++ NLPY +T + + + F I +R+
Sbjct: 2 SSGSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRL 46
>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 = 39.2 bits (92), Expect = 7e-06
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGN 51
LYI NL +T D++ +FG ++
Sbjct: 4 GSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL 42
>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 = 39.0 bits (92), Expect = 8e-06
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R +Y+ N+ Y T +E+ F G++ ++ I
Sbjct: 6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTI 38
>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 = 39.2 bits (92), Expect = 9e-06
Identities = 9/46 (19%), Positives = 22/46 (47%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S + + L++ N+P++ ++ +FG++G I + I
Sbjct: 2 SSGSSGNSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEI 47
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 39.2 bits (92), Expect = 9e-06
Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
S + LP E Y+ NLP+ ++ IF IR +R+ DT
Sbjct: 2 SSGSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDT 52
>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 = 39.5 bits (93), Expect = 9e-06
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
LYI NLP + E+ ++ +G + RI
Sbjct: 28 LYISNLPLSMDEQELENMLKPFGQVISTRI 57
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 39.1 bits (92), Expect = 1e-05
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 8 ANVRLPPEVNRVLYIRNLPYK-ITGDEMYDIFGKYGAIRQIRI 49
+ P +R+ +I NLP K ++ ++++ IF YG I QI I
Sbjct: 2 TEMHNIPPKSRL-FIGNLPLKNVSKEDLFRIFSPYGHIMQINI 43
>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 = 39.2 bits (92), Expect = 1e-05
Identities = 9/53 (16%), Positives = 22/53 (41%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
S + + +++ NL YK+ ++ ++F G + + I D +
Sbjct: 2 SSGSSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGK 54
>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 = 39.2 bits (92), Expect = 1e-05
Identities = 8/48 (16%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
++ + P N L+I +LP + ++ +F +G + ++
Sbjct: 12 SIGAAGSQKEGPEGAN--LFIYHLPQEFGDQDLLQMFMPFGNVVSAKV 57
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA
recognition motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 39.3 bits (92), Expect = 1e-05
Identities = 9/37 (24%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
P N L+I +LP + T ++ F +G + ++
Sbjct: 38 PEGCN--LFIYHLPQEFTDTDLASTFLPFGNVISAKV 72
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA
processing, mRNA splicing, transport, nucleus,
RNA-binding, spliceosome, transport; NMR {Mus musculus}
Length = 124
Score = 39.3 bits (92), Expect = 1e-05
Identities = 6/47 (12%), Positives = 21/47 (44%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ E L + NL + ++ ++ ++F ++G +++ +
Sbjct: 21 LFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAV 67
>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 = 39.9 bits (94), Expect = 1e-05
Identities = 20/46 (43%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S R + N LY+ NLP IT D++ IFGKYG+I Q I
Sbjct: 78 SYARPGGESIKDTN--LYVTNLPRTITDDQLDTIFGKYGSIVQKNI 121
Score = 38.3 bits (90), Expect = 5e-05
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L + LP +T E+Y +F G I RI
Sbjct: 6 LIVNYLPQDMTDRELYALFRAIGPINTCRI 35
>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 = 38.8 bits (91), Expect = 1e-05
Identities = 8/33 (24%), Positives = 20/33 (60%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+VL++RNL +T + + F ++G + +++
Sbjct: 11 VKVLFVRNLANTVTEEILEKAFSQFGKLERVKK 43
>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 = 38.7 bits (91), Expect = 1e-05
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
LY+ +L + IT D + IF +G I I + DT
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDT 43
>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 = 38.8 bits (91), Expect = 1e-05
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
++I+NL I +YD F +G I ++
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKV 37
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 38.5 bits (90), Expect = 2e-05
Identities = 10/45 (22%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 5 QRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
N + R L++ N+P++ ++ +FG++G I + I
Sbjct: 18 GSHMNTENKSQPKR-LHVSNIPFRFRDPDLRQMFGQFGKILDVEI 61
>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 = 39.1 bits (92), Expect = 2e-05
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L+I + K T +++ +F +G I + RI
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRI 127
Score = 37.6 bits (88), Expect = 9e-05
Identities = 6/30 (20%), Positives = 19/30 (63%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+++ +P + ++ ++F +YGA+ +I +
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINV 35
>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 91
Score = 38.1 bits (89), Expect = 2e-05
Identities = 6/44 (13%), Positives = 12/44 (27%), Gaps = 1/44 (2%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
+ +R P+ +T + + IRI
Sbjct: 6 SGTTCHTVKLRGAPFNVTEKNVMEFLAPLK-PVAIRIVRNAHGN 48
>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 = 38.5 bits (90), Expect = 2e-05
Identities = 10/38 (26%), Positives = 21/38 (55%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRY 57
L++ + + T ++++D F +YG I+ I + T Y
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY 62
>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 = 38.1 bits (89), Expect = 3e-05
Identities = 13/52 (25%), Positives = 24/52 (46%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ N++ LY+ +L + IT D + IF +G I I++ +T
Sbjct: 13 AAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSET 64
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A
{Homo sapiens} SCOP: d.58.7.1
Length = 106
Score = 38.0 bits (89), Expect = 3e-05
Identities = 9/36 (25%), Positives = 20/36 (55%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
L++ + + T ++++D F +YG I+ I + T
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT 61
>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 = 38.7 bits (90), Expect = 3e-05
Identities = 9/38 (23%), Positives = 19/38 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRY 57
L++ ++ + DE+ + F YG I+ I + T +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGF 112
>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 = 38.0 bits (88), Expect = 3e-05
Identities = 9/49 (18%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPY-KITGDEMYDIFGKYGAIRQIRI 49
+ E+ RV+++ NLP+ + + + YG I+ +
Sbjct: 10 PEGKPDQKFDQKQELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYIL 58
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA
recognition motif, vincu alpha-actinin, nucleus, RNA
binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E
Length = 284
Score = 39.2 bits (92), Expect = 3e-05
Identities = 10/49 (20%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ +R +V+L P L + NLP +T + ++ +G++ + +
Sbjct: 80 SRLRERELSVQLQPTDAL-LCVANLPPSLTQQQFEELVRPFGSLERCFL 127
Score = 37.7 bits (88), Expect = 9e-05
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGN 51
+ +R + R + IR LP +T E++D+ Y ++ +
Sbjct: 8 IRKRLEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDK 55
Score = 36.1 bits (84), Expect = 3e-04
Identities = 5/48 (10%), Positives = 12/48 (25%), Gaps = 4/48 (8%)
Query: 6 RRANVRLPPEV---NRVLYIRNLPYKIT-GDEMYDIFGKYGAIRQIRI 49
+ +R L + LP D + + ++
Sbjct: 170 HWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQL 217
>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 = 38.7 bits (91), Expect = 3e-05
Identities = 9/50 (18%), Positives = 21/50 (42%)
Query: 6 RRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+RA R + +++ + + E + F ++G I ++ DT
Sbjct: 76 KRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDT 125
Score = 31.7 bits (73), Expect = 0.009
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
++I L + T D + + FGKYG + ++I
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKI 35
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA
complex, AU-rich element, transcription/RNA complex;
1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB:
1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A
Length = 167
Score = 38.7 bits (91), Expect = 3e-05
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L + LP +T +E +FG G I ++
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKL 34
Score = 36.8 bits (86), Expect = 2e-04
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
LY+ LP +T E+ +F +YG I RI
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRI 120
>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 = 38.3 bits (89), Expect = 3e-05
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 1/56 (1%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAI-RQIRIGNTPDTR 56
R + + + +R LP+ T +E+ F + I + P+ +
Sbjct: 27 GQQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGK 82
>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 = 37.7 bits (88), Expect = 3e-05
Identities = 6/30 (20%), Positives = 17/30 (56%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L+I +P + ++ +F ++G I ++ +
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTV 45
>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 = 37.6 bits (88), Expect = 4e-05
Identities = 5/37 (13%), Positives = 17/37 (45%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ +Y+ L K++ ++++F + G + +
Sbjct: 11 ERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHM 47
>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 = 37.7 bits (88), Expect = 4e-05
Identities = 8/30 (26%), Positives = 17/30 (56%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L++ ++ + DE+ + F YG I+ I +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHL 58
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 37.8 bits (88), Expect = 5e-05
Identities = 11/48 (22%), Positives = 18/48 (37%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S RVLY+ L ++ ++ F +G I I+I
Sbjct: 48 GGSGGSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQI 95
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 36.5 bits (85), Expect = 7e-05
Identities = 4/32 (12%), Positives = 15/32 (46%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R +++ P + ++ + F +G + + +
Sbjct: 9 RSVFVSGFPRGVDSAQLSEYFLAFGPVASVVM 40
>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 = 37.0 bits (86), Expect = 7e-05
Identities = 5/45 (11%), Positives = 14/45 (31%), Gaps = 1/45 (2%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQ-IRIGNTPDTR 56
+I N+P+ IT ++ + + + +
Sbjct: 11 VNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQ 55
>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 = 36.9 bits (86), Expect = 8e-05
Identities = 6/47 (12%), Positives = 21/47 (44%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ E L + NL + ++ ++ ++F ++G +++ +
Sbjct: 15 LFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAV 61
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 36.5 bits (85), Expect = 8e-05
Identities = 7/45 (15%), Positives = 14/45 (31%), Gaps = 2/45 (4%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGA--IRQIRIGNTPDT 55
+ +RN+ D + Y + + IR+ T
Sbjct: 5 HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQT 49
>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 = 36.7 bits (85), Expect = 8e-05
Identities = 4/40 (10%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
+ + + +P+ +++ D F + + + R
Sbjct: 16 DLYVSVHGMPFSAMENDVRDFFHGLR-VDAVHLLKDHVGR 54
>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 = 36.5 bits (85), Expect = 9e-05
Identities = 10/37 (27%), Positives = 21/37 (56%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R +++ N+PY+ T +++ DIF + G + R+
Sbjct: 4 VDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRL 40
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding
protein, GU-rich RNA, structure; NMR {Trypanosoma
cruzi} SCOP: d.58.7.1
Length = 139
Score = 37.0 bits (86), Expect = 9e-05
Identities = 10/49 (20%), Positives = 21/49 (42%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ P+V R L + +P + ++ +F +YG I ++I
Sbjct: 26 QQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKI 74
>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 = 1e-04
Identities = 7/36 (19%), Positives = 17/36 (47%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ + NL ++ ++F +G+I +I + T
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTT 53
>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 = 37.1 bits (87), Expect = 1e-04
Identities = 5/53 (9%), Positives = 17/53 (32%), Gaps = 2/53 (3%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ + N L++ +L + + + + F + + + T
Sbjct: 75 WAFQSQQSSSDDTFN--LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQT 125
Score = 34.8 bits (81), Expect = 8e-04
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
RVLY+ NL IT D + F G I I+I
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKI 32
>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 = 36.0 bits (84), Expect = 1e-04
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
LY++NL I + + F +G I ++
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKV 47
>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 = 36.9 bits (86), Expect = 1e-04
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
SQR ++R N ++I+NL I +YD F +G I ++
Sbjct: 91 WSQRDPSLRKSGVGN--IFIKNLDKSIDNKALYDTFSAFGNILSCKV 135
Score = 36.5 bits (85), Expect = 2e-04
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ + P + LY+ +L +T +Y+ F G I IR+
Sbjct: 3 LGSMNPSAPSYPMAS--LYVGDLHPDVTEAMLYEKFSPAGPILSIRV 47
>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 = 36.0 bits (84), Expect = 1e-04
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 15 EVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
RVLY+ L ++ ++ F +G I I+I
Sbjct: 10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQI 44
>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 = 35.6 bits (83), Expect = 2e-04
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 15 EVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
RVLY+ L ++ ++ F +G I I+I
Sbjct: 5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQI 39
>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 = 36.8 bits (86), Expect = 2e-04
Identities = 9/44 (20%), Positives = 20/44 (45%)
Query: 6 RRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
RR + P L+I LP + D++ ++ +G ++ +
Sbjct: 83 RRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNL 126
Score = 34.9 bits (81), Expect = 9e-04
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIG 50
R LY+ N+P+ IT + M D F + +
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQA 37
>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 = 2e-04
Identities = 8/47 (17%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 5 QRRANVRLPPEVNRV--LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R + + + + +Y+ ++ Y++ D + F +G I+ I +
Sbjct: 14 GRGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDM 60
Score = 35.0 bits (81), Expect = 8e-04
Identities = 10/57 (17%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 2 AMSQRRANVRLPPEVNRV---LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ Q + + E R +Y+ ++ ++ D++ +F +G I+ + P T
Sbjct: 107 NIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTT 163
>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 = 35.7 bits (83), Expect = 2e-04
Identities = 5/30 (16%), Positives = 19/30 (63%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+++ + ++ E+ F +YG++++++I
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKI 41
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 36.8 bits (85), Expect = 2e-04
Identities = 6/48 (12%), Positives = 21/48 (43%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ E L + NL + ++ ++ ++F ++G +++ +
Sbjct: 73 DLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAV 120
>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 = 35.2 bits (82), Expect = 2e-04
Identities = 8/32 (25%), Positives = 21/32 (65%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R +Y+ NL Y T +++ ++F ++G + +++
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKL 33
>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 = 35.5 bits (82), Expect = 2e-04
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAI 44
N L+I +P +E+ + K
Sbjct: 8 NCRLFIGGIPKMKKREEILEEIAKVTEG 35
>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 = 36.2 bits (84), Expect = 3e-04
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L++ NLP IT ++ +F +YG ++ I
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFI 54
Score = 33.5 bits (77), Expect = 0.003
Identities = 5/30 (16%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L ++NL ++ + + F ++G + + +
Sbjct: 99 LTVKNLSPVVSNELLEQAFSQFGPVEKAVV 128
>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 = 35.3 bits (82), Expect = 3e-04
Identities = 7/36 (19%), Positives = 15/36 (41%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L++ L + + +F KYG I ++ +
Sbjct: 9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVV 44
>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 = 35.8 bits (83), Expect = 3e-04
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIG 50
R LY+ N+P+ IT + M D F + +
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQA 37
Score = 34.6 bits (80), Expect = 0.001
Identities = 6/30 (20%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L+I LP + D++ ++ +G ++ +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNL 146
>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 = 34.9 bits (81), Expect = 4e-04
Identities = 6/30 (20%), Positives = 12/30 (40%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L+I NL + E+ + A + +
Sbjct: 20 LFIGNLNPNKSVAELKVAISELFAKNDLAV 49
>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 = 34.7 bits (80), Expect = 6e-04
Identities = 8/46 (17%), Positives = 14/46 (30%), Gaps = 2/46 (4%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
R P LY+ +T + F +G I + +
Sbjct: 26 RSDSFPERRAPRKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSM 69
>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 = 6e-04
Identities = 4/36 (11%), Positives = 14/36 (38%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
L++ +L + + + + F + + + T
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQT 39
>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 = 34.5 bits (79), Expect = 8e-04
Identities = 6/47 (12%), Positives = 18/47 (38%), Gaps = 2/47 (4%)
Query: 5 QRRANVRLPPEVNRVLYIRN--LPYKITGDEMYDIFGKYGAIRQIRI 49
R + + L + N L ++ +++ + K G + + +
Sbjct: 13 LRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLM 59
>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 = 34.1 bits (78), Expect = 8e-04
Identities = 6/46 (13%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKY---GAIRQIRIGNTPDTR 56
+ ++ + LP+ T +++ + F I D +
Sbjct: 8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGK 53
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 97
Score = 33.7 bits (77), Expect = 0.001
Identities = 5/28 (17%), Positives = 12/28 (42%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAI 44
+Y+ NLP ++ + G++
Sbjct: 19 AADVYVGNLPRDARVSDLKRALRELGSV 46
>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 = 33.9 bits (78), Expect = 0.001
Identities = 8/36 (22%), Positives = 18/36 (50%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+++ +L +IT +++ F +G I R+ T
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMAT 53
>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 = 34.1 bits (78), Expect = 0.001
Identities = 10/58 (17%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 4 SQRRANVRLPPEV--NRVLYIRNLPYKITGDEMYDIFGKY---GAIRQIRIGNTPDTR 56
S + + L PE V+ +R LP+ + +++ + + + T + R
Sbjct: 2 SSGSSGMMLGPEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGR 59
>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 = 33.8 bits (78), Expect = 0.001
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
L+I L + + +FGK+G I ++ +
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLL 39
>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 = 34.4 bits (78), Expect = 0.002
Identities = 8/39 (20%), Positives = 19/39 (48%)
Query: 17 NRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ L++ + Y T ++ F YG I++I + + +
Sbjct: 102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRS 140
>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 = 34.0 bits (77), Expect = 0.002
Identities = 9/37 (24%), Positives = 17/37 (45%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
NR +YI+ P T D++ + G + I++
Sbjct: 105 NDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQM 141
>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 = 33.8 bits (78), Expect = 0.002
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 2/51 (3%)
Query: 7 RANVRLPPEVNRV--LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
R + + P V +++ + + D F +YG I I I +
Sbjct: 92 REDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS 142
Score = 33.8 bits (78), Expect = 0.002
Identities = 15/74 (20%), Positives = 31/74 (41%), Gaps = 11/74 (14%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT------- 55
MS + + + P ++ + L+I L ++ T + + F ++G + + P+T
Sbjct: 1 MS-KSESPKEPEQLRK-LFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFG 58
Query: 56 --RYLTKSLVMKCM 67
Y T V M
Sbjct: 59 FVTYATVEEVDAAM 72
>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 96
Score = 32.9 bits (76), Expect = 0.002
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAI-RQIRIGNTPDT 55
++I NL +I +YD F +G I + +I PDT
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDT 44
>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 = 32.5 bits (75), Expect = 0.002
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTR 56
+++ +L +IT + F +G I R+ T
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATG 45
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 33.6 bits (76), Expect = 0.003
Identities = 8/42 (19%), Positives = 16/42 (38%), Gaps = 9/42 (21%)
Query: 17 NRVLYIRNLPYKITG---------DEMYDIFGKYGAIRQIRI 49
N+ LY+ + + + +F + G I +IR
Sbjct: 134 NKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRY 175
>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 = 32.0 bits (73), Expect = 0.003
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 18 RVLYIRNLPYKITGDEMYDIFGKYGAIR 45
R LY+ N+P+ IT + M D F +
Sbjct: 7 RRLYVGNIPFGITEEAMMDFFNAQMRLG 34
>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 = 33.2 bits (75), Expect = 0.004
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGA--IRQIRIGNTPDT 55
LYI NL + T +++ + G I +I+
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRAN 108
>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 = 32.2 bits (74), Expect = 0.004
Identities = 6/42 (14%), Positives = 16/42 (38%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIR 45
S + + ++ L+++ L T + + + F R
Sbjct: 2 SSGSSGPNARSQPSKTLFVKGLSEDTTEETLKESFDGSVRAR 43
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 114
Score = 32.3 bits (73), Expect = 0.006
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 4/59 (6%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDTRYLTKSLVMKCMIFLV 71
+R +++ LP I DE+ F ++G + Y K FL+
Sbjct: 4 GSSGSRKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPP----KGYAFLL 58
>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 = 31.1 bits (71), Expect = 0.009
Identities = 9/47 (19%), Positives = 16/47 (34%), Gaps = 2/47 (4%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIG 50
S + R P LY+ +T + F +G I + +
Sbjct: 2 SSGSSGERRAPRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD 46
>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 = 30.9 bits (70), Expect = 0.013
Identities = 5/46 (10%), Positives = 14/46 (30%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
S + + + LP + ++ D + G + +
Sbjct: 2 SSGSSGGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADV 47
>3n9u_C Cleavage and polyadenylation specificity factor S;
protein-protein complex, coexpression, heterotetramer,
mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 31.4 bits (71), Expect = 0.013
Identities = 3/26 (11%), Positives = 10/26 (38%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIR 45
+Y+ + + T ++ + G
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYD 83
>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 = 30.8 bits (70), Expect = 0.014
Identities = 5/38 (13%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYG-AIRQIRI 49
+ L++ +L + + + F G + ++I
Sbjct: 5 SSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKI 42
>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 = 30.3 bits (69), Expect = 0.021
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+++ LPY T + F +G I + + T
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT 55
>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 = 29.9 bits (68), Expect = 0.023
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAI 44
LYI NL + T +++ + G
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVN 28
>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 = 30.3 bits (69), Expect = 0.024
Identities = 10/52 (19%), Positives = 23/52 (44%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
S + V+ + L + LP+K T ++ + F +G + +++ T
Sbjct: 2 SSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKT 53
>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 = 30.2 bits (68), Expect = 0.028
Identities = 9/41 (21%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 19 VLYIRNLPYKITGDEM---YDIFGKYGAIRQIRIGNTPDTR 56
++++ L ++ E+ + FGK+G I ++ I N+
Sbjct: 17 LVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYA 57
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national
project on protein structural and functional analyses;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 102
Score = 29.4 bits (66), Expect = 0.045
Identities = 7/47 (14%), Positives = 15/47 (31%), Gaps = 3/47 (6%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGD-EMYDIFGKYGAIRQIRI 49
R+ RV++I + ++ + +G I I
Sbjct: 4 GSSGQKGRVET--RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLI 48
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 28.9 bits (65), Expect = 0.069
Identities = 6/34 (17%), Positives = 12/34 (35%)
Query: 16 VNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
VN I + + + +F K G + +
Sbjct: 11 VNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEF 44
>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 = 27.9 bits (63), Expect = 0.15
Identities = 5/42 (11%), Positives = 19/42 (45%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ +++ +P+ E+ + F K+G + ++ + +
Sbjct: 7 GSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEK 48
>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 = 27.7 bits (61), Expect = 0.19
Identities = 10/48 (20%), Positives = 27/48 (56%), Gaps = 6/48 (12%)
Query: 20 LYIRNLPYKITGDEM----YDIFGKYGAIRQIRIGNTPDTRYLTKSLV 63
+ + N+ Y+++ E+ + F ++G ++ + + +P T Y K++V
Sbjct: 12 VQVSNIDYRLSRKELQQLLQEAFARHGKVKSVEL--SPHTDYQLKAVV 57
>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 = 27.6 bits (62), Expect = 0.20
Identities = 7/30 (23%), Positives = 16/30 (53%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+++ +T DE+ + F +YG + + I
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI 37
>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 = 27.5 bits (62), Expect = 0.22
Identities = 9/42 (21%), Positives = 19/42 (45%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
E +++ L + + ++ D F K+G + I P+T
Sbjct: 8 EEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNT 49
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome
biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae}
PDB: 2osr_A
Length = 111
Score = 27.5 bits (61), Expect = 0.24
Identities = 7/43 (16%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 2 AMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAI 44
+ + +LP + R+ ++NLP + ++ D+ +
Sbjct: 14 LVPRGSHMSKLPAKRYRI-TMKNLPEGCSWQDLKDLARENSLE 55
>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 = 27.6 bits (62), Expect = 0.27
Identities = 8/49 (16%), Positives = 21/49 (42%)
Query: 7 RANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ E R L+I L ++ T + + + + ++G + + P +
Sbjct: 17 LERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPAS 65
>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 = 26.8 bits (60), Expect = 0.35
Identities = 6/37 (16%), Positives = 15/37 (40%)
Query: 13 PPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+++ +T +E+ F +YG + + I
Sbjct: 7 HHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFI 43
>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 = 26.8 bits (60), Expect = 0.39
Identities = 8/42 (19%), Positives = 16/42 (38%)
Query: 14 PEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+ L++ L + T + + F +YG + I T
Sbjct: 13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTT 54
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1
Length = 77
Score = 26.7 bits (60), Expect = 0.40
Identities = 8/36 (22%), Positives = 21/36 (58%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
++I L ++ T + + + FG++G +++ + P T
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT 38
>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 = 26.7 bits (59), Expect = 0.47
Identities = 5/46 (10%), Positives = 14/46 (30%)
Query: 4 SQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRI 49
+ R + + LP + ++ D + G + +
Sbjct: 3 APRGRYGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADV 48
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 25.9 bits (58), Expect = 0.60
Identities = 5/36 (13%), Positives = 15/36 (41%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+++ L T +++ F ++G + + T
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTT 37
>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 = 25.9 bits (58), Expect = 0.70
Identities = 6/36 (16%), Positives = 16/36 (44%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
+++ L +++ + FG +G + I + T
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKT 37
>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 = 26.1 bits (58), Expect = 0.95
Identities = 8/36 (22%), Positives = 21/36 (58%)
Query: 20 LYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTPDT 55
++I L ++ T + + + FG++G +++ + P T
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT 63
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 25.7 bits (57), Expect = 1.1
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 20 LYIRNLPYKITGDEMYDIFGK-YGAIRQIRI 49
L++ +L + +Y+ F K Y + R ++
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKV 42
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 25.5 bits (56), Expect = 1.4
Identities = 8/49 (16%), Positives = 20/49 (40%), Gaps = 6/49 (12%)
Query: 7 RANVRLPPEVNRVLYIRNLP------YKITGDEMYDIFGKYGAIRQIRI 49
+ + ++ V+ + N+P + + ++ IF K+G I
Sbjct: 5 KDRPQEADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFY 53
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 25.8 bits (56), Expect = 1.8
Identities = 11/71 (15%), Positives = 23/71 (32%), Gaps = 21/71 (29%)
Query: 6 RRANVRLPPEVNRVLYI--RNLP--YKITGDEMYDIFGKYGAIRQIRIGNTPD------- 54
+ N LP + + I N ++G ++G +R+ + + D
Sbjct: 354 NKTNSHLPA--GKQVEISLVNGAKNLVVSGPPQ-SLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 55 -------TRYL 58
R+L
Sbjct: 411 ERKLKFSNRFL 421
>2fdv_A Cytochrome P450 2A6; CYP2A6, monooxygenase, drug metabolizing
enzyme, coumarin 7-hydroxylase, nicotine oxidase,
oxidoreductase; HET: HEM D2G; 1.65A {Homo sapiens} PDB:
1z11_A* 1z10_A* 2fdu_A* 2fdw_A* 2fdy_A* 3t3r_A* 2pg5_A*
2pg7_A* 2pg6_A* 3t3q_A* 3ebs_A* 2p85_A* 3t3s_A*
Length = 476
Score = 25.6 bits (57), Expect = 2.1
Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 5 QRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIF----GKYGAIRQIRIGNTP 53
+ + +LPP + +I N + ++MY+ +YG + I +G
Sbjct: 4 KTSSKGKLPPGPTPLPFIGNYLQ-LNTEQMYNSLMKISERYGPVFTIHLGPRR 55
>3iei_A Leucine carboxyl methyltransferase 1; LCMT-1,
S-adenosyl-L-methionine; HET: SAH MES; 1.90A {Homo
sapiens} PDB: 3p71_T* 3mnt_A* 3o7w_A*
Length = 334
Score = 25.0 bits (54), Expect = 2.8
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 4/53 (7%)
Query: 6 RRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGKYGAIRQIRIGNTP-DTRY 57
R + R PE+NR + R + K QI DT +
Sbjct: 56 RLSKERKAPEINRGYFAR---VHGVSQLIKAFLRKTECHCQIVNLGAGMDTTF 105
>1r9o_A Cytochrome P450 2C9; monooxygenase, drug metabolizing enzyme,
oxidoreductas; HET: HEM FLP; 2.00A {Homo sapiens} SCOP:
a.104.1.1 PDB: 1og5_A* 1og2_A* 2nnj_A* 1pq2_A* 2nni_A*
2nnh_A* 2vn0_A* 1nr6_A* 1dt6_A* 1n6b_A*
Length = 477
Score = 24.8 bits (55), Expect = 3.5
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 5/57 (8%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGK----YGAIRQIRIGNTP 53
MA +LPP + I N+ I ++ YG + + G P
Sbjct: 1 MAKKTSSGRGKLPPGPTPLPVIGNILQ-IGIKDISKSLTNLSKVYGPVFTLYFGLKP 56
>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 = 24.2 bits (53), Expect = 3.7
Identities = 7/48 (14%), Positives = 15/48 (31%), Gaps = 10/48 (20%)
Query: 12 LPPEVNRVLYIRNL--PYKITGDEMY-----DIF---GKYGAIRQIRI 49
+ P + + N+ P D+ K+G + I +
Sbjct: 2 VQPLATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYV 49
>1po5_A Cytochrome P450 2B4; oxidoreductase, membrane protein, CYP 2B4,
CYP LM2, cytochro monooxygenase; HET: HEM; 1.60A
{Oryctolagus cuniculus} SCOP: a.104.1.1 PDB: 3mvr_A*
2bdm_A* 3g5n_A* 3g93_A* 3kw4_A* 3me6_A* 1suo_A* 3r1a_A*
3r1b_A* 2q6n_A* 3tk3_A* 3ibd_A* 3qoa_A* 3qu8_A*
Length = 476
Score = 24.8 bits (55), Expect = 3.8
Identities = 10/53 (18%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 5 QRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGK----YGAIRQIRIGNTP 53
+ + +LPP + + + NL + + F + YG + + +G+ P
Sbjct: 4 KTSSKGKLPPGPSPLPVLGNLLQ-MDRKGLLRSFLRLREKYGDVFTVYLGSRP 55
>3swz_A Steroid 17-alpha-hydroxylase/17,20 lyase; cytochrome P450,
CYP17A1, P450C17, P450 17A1, monooxyg 17A-hydroxylase,
heme protein; HET: HEM TOK; 2.40A {Homo sapiens} PDB:
3ruk_A*
Length = 494
Score = 24.8 bits (55), Expect = 3.9
Identities = 12/55 (21%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 3 MSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFG----KYGAIRQIRIGNTP 53
M+++ + P + + + +LP+ M++ F KYG I +R+G
Sbjct: 1 MAKKTGA-KYPKSLLSLPLVGSLPFLPRHGHMHNNFFKLQKKYGPIYSVRMGTKT 54
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 23.9 bits (52), Expect = 4.3
Identities = 8/39 (20%), Positives = 17/39 (43%), Gaps = 6/39 (15%)
Query: 17 NRVLYIRNLP------YKITGDEMYDIFGKYGAIRQIRI 49
+ V+ + N+P + + ++ IF K+G I
Sbjct: 1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFY 39
>1nxc_A Mannosyl-oligosaccharide 1,2-alpha-mannosidase IA; glycosidase,
structural genomics, PSI, protein initiative; HET: NAG
BMA MAN; 1.51A {Mus musculus} SCOP: a.102.2.1
Length = 478
Score = 24.1 bits (52), Expect = 5.8
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 1 MAMSQRRANVRLPPEVNRVLYIRNLPYKITGDEMYDIFGK 40
+A Q L PEV +++T D Y +
Sbjct: 358 IATRQNEKYYILRPEVIETYMY---MWRLTHDPKYRTWAW 394
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
0.325 0.141 0.406
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: 1,228,562
Number of extensions: 61811
Number of successful extensions: 411
Number of sequences better than 10.0: 1
Number of HSP's gapped: 399
Number of HSP's successfully gapped: 204
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.4 bits)