RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1630
(149 letters)
>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: a.4.5.46
Length = 101
Score = 98.8 bits (246), Expect = 5e-28
Identities = 48/69 (69%), Positives = 57/69 (82%)
Query: 13 CRENLANDAYLLSQMDNDQYVPIWTVANFNQVKKLTKDIKLITEVLRESPNVQVDEEGIK 72
RENL+ D YL+SQMD+DQ++PIWTVAN ++KKLT D LI EVLR SP VQVDE+G K
Sbjct: 27 SRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGEK 86
Query: 73 VRPNHKRCI 81
VRP+HKRCI
Sbjct: 87 VRPSHKRCI 95
>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 = 88.4 bits (218), Expect = 7e-23
Identities = 32/152 (21%), Positives = 59/152 (38%), Gaps = 22/152 (14%)
Query: 13 CRENLANDAYLLSQMDNDQ-YVPIWTVANFNQVKKLTKDIKLITEVLRESPNVQVDEEGI 71
NL D +L Q+ D+ +VP+ + FN++ +LT D +I E L +S ++
Sbjct: 25 GDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISED 84
Query: 72 KVR-----------------PNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFIS---- 110
K + + K V ++ P L++I+ K I
Sbjct: 85 KTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRT 144
Query: 111 CEFAHNNSWYITFENDEDAQKAYRYLREDVRE 142
A S ++ F++ E A+K + +E
Sbjct: 145 LHKAFKGSIFVVFDSIESAKKFVETPGQKYKE 176
>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding,
RNA binding protein; 1.60A {Trypanosoma brucei} SCOP:
a.4.5.46
Length = 92
Score = 78.3 bits (193), Expect = 4e-20
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 13 CRENLANDAYLLSQM--DNDQYVPIWTVANFNQVKKLTKDIKLITEVLRESPNVQVDEEG 70
N+ D +L +M + + +V + T+ F +V +T D+K + E +R S + + E+G
Sbjct: 23 SDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDG 82
Query: 71 IKVR 74
+ VR
Sbjct: 83 LMVR 86
>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 = 38.5 bits (89), Expect = 4e-04
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 27/72 (37%)
Query: 38 VANFN----QV----KKLTKDIKLITEVLRESPNVQVDEEGIKVRPNHKRCIVILREIPD 89
+ N+N Q + + +T VL IK++ + + E+
Sbjct: 1843 IVNYNVENQQYVAAGDL--RALDTVTNVLNF----------IKLQK------IDIIELQK 1884
Query: 90 STPLEEIRG-LF 100
S LEE+ G LF
Sbjct: 1885 SLSLEEVEGHLF 1896
>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 = 34.9 bits (81), Expect = 0.001
Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 9/55 (16%)
Query: 87 IPDSTPLEEIRGLFSGKSCPRF---ISCEFAHNNSW-YITFENDEDAQKAYRYLR 137
+ +T L + F RF + + +S+ YI +E+ + AQ A +R
Sbjct: 25 LGPNTSLAALAREFD-----RFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMR 74
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 36.4 bits (83), Expect = 0.002
Identities = 24/164 (14%), Positives = 47/164 (28%), Gaps = 47/164 (28%)
Query: 8 LACVCCRENLANDAYLLSQMDNDQYVPIW-TVANFN-------QVKKLTKDI-KLITEVL 58
+A C + +MD + W + N N ++KL I T
Sbjct: 166 VALDVCL-----SYKVQCKMDFKIF---WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 59 RESPNVQVDEEGIKVR-------PNHKRCIVILREIPDSTPLEEIRGLFSGKSCP----- 106
S N+++ I+ ++ C+++L + ++ F+ C
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN----AFNLS-CKILLTT 272
Query: 107 RFISCEFAHNNSWYITFENDEDAQKAYRYLREDVRE-FQNKESK 149
RF +T + A + E K
Sbjct: 273 RFKQ----------VT--DFLSAATTTHISLDHHSMTLTPDEVK 304
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 33.6 bits (77), Expect = 0.005
Identities = 12/63 (19%), Positives = 24/63 (38%), Gaps = 6/63 (9%)
Query: 78 KRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNN----SWYITFENDEDAQKAY 133
+ + +R IP E + L SCE + + +T+ + + A++A
Sbjct: 14 RIRKLQIRNIPPHLQWEVLDSLLV--QYGVVESCEQVNTDSETAVVNVTYSSKDQARQAL 71
Query: 134 RYL 136
L
Sbjct: 72 DKL 74
>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 = 33.1 bits (76), Expect = 0.006
Identities = 12/61 (19%), Positives = 24/61 (39%), Gaps = 8/61 (13%)
Query: 79 RCIVILREIPDSTPLEEIRGLFSG---KSCPRFISCEFAHNNSWYITFENDEDAQKAYRY 135
++++ +P + +E+ L K C + A ++T N E AQ A +
Sbjct: 5 SSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTA-----FVTLLNGEQAQNAIQM 59
Query: 136 L 136
Sbjct: 60 F 60
>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 = 32.1 bits (73), Expect = 0.023
Identities = 12/76 (15%), Positives = 28/76 (36%), Gaps = 4/76 (5%)
Query: 74 RPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSWYITFENDEDAQKAY 133
V++ +P S ++++ + + + + + F ED A
Sbjct: 10 PSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCY--ADVYRDGTGVVEFVRKEDMTYAV 67
Query: 134 RYLREDVREFQNKESK 149
R L D +F++ E +
Sbjct: 68 RKL--DNTKFRSHEGE 81
>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 = 31.7 bits (72), Expect = 0.029
Identities = 12/76 (15%), Positives = 28/76 (36%), Gaps = 4/76 (5%)
Query: 74 RPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSWYITFENDEDAQKAY 133
V++ +P S ++++ + + + + + F ED A
Sbjct: 11 PSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCY--ADVYRDGTGVVEFVRKEDMTYAV 68
Query: 134 RYLREDVREFQNKESK 149
R L D +F++ E +
Sbjct: 69 RKL--DNTKFRSHEGE 82
>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 = 31.5 bits (72), Expect = 0.030
Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 14/74 (18%)
Query: 80 CIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW------YITFENDEDAQKAY 133
I+ ++ +P + ++EI F G S +N + FE+ ++A A
Sbjct: 16 TIIKVQNMPFTVSIDEILDFFYGYQVIP-GSVCLKYNEKGMPTGEAMVAFESRDEATAA- 73
Query: 134 RYLREDVREFQNKE 147
V + ++
Sbjct: 74 ------VIDLNDRP 81
>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 = 31.5 bits (72), Expect = 0.031
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 9/54 (16%)
Query: 87 IPDSTPLEEIRGLFS----GKSCPRFISCEFAHNNSWYITFENDEDAQKAYRYL 136
+ ST E I F+ G ++A ++ F N EDA +A + L
Sbjct: 23 LMLSTSEEMIEKEFNNIKPGAVERVKKIRDYA-----FVHFSNREDAVEAMKAL 71
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.8 bits (71), Expect = 0.047
Identities = 8/51 (15%), Positives = 10/51 (19%), Gaps = 32/51 (62%)
Query: 42 NQVKKLTKDIKLITEVLRESPNVQVDEEGIKVRPNHKRCIVILREIPDSTP 92
+KKL +KL DS P
Sbjct: 20 QALKKLQASLKLYA--------------------------------DDSAP 38
>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 = 30.9 bits (70), Expect = 0.047
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 80 CIVILREIPDSTPLEEIRGLFSG-KSCPRFISCEFAHNNSW----YITFENDEDAQKA 132
V LR +P EEI FSG + P ++ ++ F + E A+KA
Sbjct: 16 GFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKA 73
>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 = 31.4 bits (71), Expect = 0.049
Identities = 11/77 (14%), Positives = 20/77 (25%), Gaps = 3/77 (3%)
Query: 59 RESPNVQVDEEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNS 118
+ + + V +R +P +I FS + R
Sbjct: 26 GGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEIGPDGRV 85
Query: 119 W---YITFENDEDAQKA 132
+ F E+A A
Sbjct: 86 TGEADVEFATHEEAVAA 102
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 124
Score = 31.0 bits (70), Expect = 0.056
Identities = 11/63 (17%), Positives = 21/63 (33%), Gaps = 5/63 (7%)
Query: 75 PNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRF-ISCEFAHNNS----WYITFENDEDA 129
P+ V L+ +P + + F I + N ++ F N+ D
Sbjct: 21 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADY 80
Query: 130 QKA 132
+ A
Sbjct: 81 KAA 83
>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 = 31.0 bits (70), Expect = 0.058
Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Query: 74 RPNHKRCIVILREIPDSTPLEEIRGLFSGKSCP------RFISCEFAHNNSW-YITFEND 126
+ +V LR +P S +E+++ S + FI + ++ E++
Sbjct: 12 PEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESE 71
Query: 127 EDAQKAYRYLRE 138
+D + A + RE
Sbjct: 72 DDVKLALKKDRE 83
>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 = 31.0 bits (70), Expect = 0.071
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 5/70 (7%)
Query: 68 EEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFSG-KSCPRFISCEFAHNNSW----YIT 122
G + V LR +P EEI FSG + P I+ ++
Sbjct: 31 GRGSNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQ 90
Query: 123 FENDEDAQKA 132
F + E A+KA
Sbjct: 91 FASQELAEKA 100
>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 = 30.0 bits (68), Expect = 0.10
Identities = 12/74 (16%), Positives = 28/74 (37%), Gaps = 14/74 (18%)
Query: 80 CIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW------YITFENDEDAQKAY 133
++ ++ +P + ++EI F G S +N + FE+ ++A A
Sbjct: 16 TVIKVQNMPFTVSIDEILDFFYGYQVIP-GSVCLKYNEKGMPTGEAMVAFESRDEATAA- 73
Query: 134 RYLREDVREFQNKE 147
V + ++
Sbjct: 74 ------VIDLNDRP 81
>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 = 30.1 bits (68), Expect = 0.11
Identities = 12/61 (19%), Positives = 18/61 (29%), Gaps = 3/61 (4%)
Query: 75 PNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW---YITFENDEDAQK 131
+ V +R +P +I FS + R + F EDA
Sbjct: 11 QSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVA 70
Query: 132 A 132
A
Sbjct: 71 A 71
>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA
recognition motif, G-tract, G-quadruplex, alternative,
splicing, RNA binding protein; NMR {Homo sapiens} PDB:
2kfy_A
Length = 136
Score = 30.4 bits (68), Expect = 0.12
Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 7/71 (9%)
Query: 75 PNHKRCIVILREIPDSTPLEEIRGLFSGKSCP------RFISCEFAHNNSW-YITFENDE 127
+ +V LR +P S +E+++ S + FI + ++ +++
Sbjct: 40 EGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSED 99
Query: 128 DAQKAYRYLRE 138
D + A + RE
Sbjct: 100 DVKMALKKDRE 110
>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 = 29.8 bits (67), Expect = 0.14
Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 15/71 (21%)
Query: 74 RPNHKR--CIVILREIPDSTPLEEIRGLFS--GK----SCPRFISCEFAHNNSWYITFEN 125
+ R +++ + +P T EI+ FS G P + F
Sbjct: 3 SGSSGRSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAI-------VEFLE 55
Query: 126 DEDAQKAYRYL 136
+A+KA+R+L
Sbjct: 56 PLEARKAFRHL 66
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 29.2 bits (66), Expect = 0.17
Identities = 11/69 (15%), Positives = 23/69 (33%), Gaps = 7/69 (10%)
Query: 75 PNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAH----NNSW---YITFENDE 127
+H +ILR I T ++ I S + + + ++ +
Sbjct: 5 HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAM 64
Query: 128 DAQKAYRYL 136
DA + + L
Sbjct: 65 DASQLLQIL 73
>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 = 29.1 bits (66), Expect = 0.22
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 15/56 (26%)
Query: 87 IPDSTPLEEIRGLFS--GKSCPRFISCE----FAHNNSWYITFENDEDAQKAYRYL 136
I + +E+R F G I C+ +A ++ E EDA +A R L
Sbjct: 18 ISPTCTNQELRAKFEEYG----PVIECDIVKDYA-----FVHMERAEDAVEAIRGL 64
>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 = 29.1 bits (66), Expect = 0.24
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 120 YITFENDEDAQKAYRYLREDVREFQ 144
++TF E A KAY + D + FQ
Sbjct: 54 FVTFMFPEHAVKAYAEV--DGQVFQ 76
>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 = 28.8 bits (65), Expect = 0.29
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 120 YITFENDEDAQKAYRYL 136
+I F + EDA++A
Sbjct: 57 FIEFASFEDAKEALNSC 73
>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 = 28.4 bits (64), Expect = 0.33
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 120 YITFENDEDAQKAYRYL 136
YI F+++ DA+K
Sbjct: 57 YIEFKSEADAEKNLEEK 73
>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 = 29.6 bits (67), Expect = 0.36
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 16/92 (17%)
Query: 65 QVDEEGIKVRPNH------KRCIVILREIPDSTPLEEIRGLFSG---KSCPRFISCEFAH 115
+D E I+ R H R +++R +P +E+ L S K C A
Sbjct: 2 MLDPEEIRKRLEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYELKYCFVDKYKGTA- 60
Query: 116 NNSWYITFENDEDAQKAYRYLREDVREFQNKE 147
++T N E A+ A + +E
Sbjct: 61 ----FVTLLNGEQAEAAINAF--HQSRLRERE 86
Score = 27.6 bits (62), Expect = 1.7
Identities = 7/69 (10%), Positives = 21/69 (30%), Gaps = 9/69 (13%)
Query: 71 IKVRPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW-------YITF 123
+ V+ ++ + +P S ++ L C ++ + +
Sbjct: 87 LSVQLQPTDALLCVANLPPSLTQQQFEELVR--PFGSLERCFLVYSERTGQSKGYGFAEY 144
Query: 124 ENDEDAQKA 132
+ A +A
Sbjct: 145 MKKDSAARA 153
>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 = 28.6 bits (64), Expect = 0.40
Identities = 9/56 (16%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 80 CIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW---YITFENDEDAQKA 132
V + +P S ++R F G + + + F + +D +A
Sbjct: 17 LYVSVHGMPFSAMENDVRDFFHGLRVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEA 72
>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 = 0.41
Identities = 8/74 (10%), Positives = 26/74 (35%), Gaps = 10/74 (13%)
Query: 68 EEGIKVRPNHKRCIVILR-EIPDSTPLEEIRGLFSGKSCPRFISCE----FAHNNSWYIT 122
EGI+ + +V+ + + ++ + + + + +
Sbjct: 15 HEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLE-----KCGLVDALLMPPNKPYSFAR 69
Query: 123 FENDEDAQKAYRYL 136
+ E++++AY L
Sbjct: 70 YRTTEESKRAYVTL 83
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 28.1 bits (63), Expect = 0.49
Identities = 5/69 (7%), Positives = 18/69 (26%), Gaps = 10/69 (14%)
Query: 75 PNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW-------YITFENDE 127
+ + + D+ ++ + E + + F +
Sbjct: 3 QIPLKEVTF-ARLNDNVRETFLKDMCR--KYGEVEEVEILLHPRTRKHLGLARVLFTSTR 59
Query: 128 DAQKAYRYL 136
A++ + L
Sbjct: 60 GAKETVKNL 68
>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 = 27.9 bits (63), Expect = 0.56
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 120 YITFENDEDAQKAYRYL 136
Y+ FEN ++A+KA +++
Sbjct: 51 YVEFENPDEAEKALKHM 67
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 27.9 bits (62), Expect = 0.66
Identities = 9/67 (13%), Positives = 21/67 (31%), Gaps = 3/67 (4%)
Query: 81 IVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHN-NSWYITFENDEDAQKAYRYLRED 139
++ +R++P E+ L + + N +I +E A Y
Sbjct: 18 VIHIRKLPIDVTEGEVISLGL--PFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSV 75
Query: 140 VREFQNK 146
+ +
Sbjct: 76 TPVLRGQ 82
>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 91
Score = 27.7 bits (62), Expect = 0.67
Identities = 10/56 (17%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 81 IVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW----YITFENDEDAQKA 132
V LR P + + + + P I + + ++ F N+E+ ++A
Sbjct: 12 TVKLRGAPFNVTEKNVMEFLAP-LKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQA 66
>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 = 28.5 bits (63), Expect = 0.68
Identities = 11/70 (15%), Positives = 21/70 (30%), Gaps = 5/70 (7%)
Query: 68 EEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW-----YIT 122
E+ K R H ++ P E + R S + S +
Sbjct: 112 EQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLE 171
Query: 123 FENDEDAQKA 132
+++ DA +
Sbjct: 172 WDSKSDALET 181
Score = 25.4 bits (55), Expect = 6.6
Identities = 4/51 (7%), Positives = 13/51 (25%), Gaps = 4/51 (7%)
Query: 88 PDSTPLEEIRGLFSGKSCPRFISCEFAHNNSWY--ITFENDEDAQKAYRYL 136
+ + +F +F + + + +A +L
Sbjct: 14 QSKMNCDRVFNVFC--LYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHL 62
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 27.9 bits (62), Expect = 0.77
Identities = 15/80 (18%), Positives = 27/80 (33%), Gaps = 8/80 (10%)
Query: 67 DEEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFSG----KSCPRFISCEFAHNNSW--- 119
E + + IV +R +P + EE+ F I +
Sbjct: 11 SNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGD 70
Query: 120 -YITFENDEDAQKAYRYLRE 138
++ F +E AQ A R ++
Sbjct: 71 AFVLFACEEYAQNALRKHKD 90
>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 = 28.2 bits (63), Expect = 0.77
Identities = 7/27 (25%), Positives = 14/27 (51%), Gaps = 5/27 (18%)
Query: 110 SCEFAHNNSWYITFENDEDAQKAYRYL 136
+C F ++ + + DA+ A RY+
Sbjct: 80 ACGFC-----FVEYYSRADAENAMRYI 101
>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 = 27.8 bits (62), Expect = 0.79
Identities = 13/75 (17%), Positives = 26/75 (34%), Gaps = 15/75 (20%)
Query: 75 PNHKRCIVILREIPDSTPLEEIRGLFSGKSCPR---FISCE-------FAHNNSWYITFE 124
N + + IP S ++ G + + A + F+
Sbjct: 11 VNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQA-----LVQFK 65
Query: 125 NDEDAQKAYRYLRED 139
N++DA+K+ R R+
Sbjct: 66 NEDDARKSERLHRKK 80
>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 = 27.8 bits (62), Expect = 0.84
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 120 YITFENDEDAQKAYRYL 136
++ FEN +DA++A
Sbjct: 92 FVYFENVDDAKEAKERA 108
>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 = 27.5 bits (61), Expect = 0.86
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 120 YITFENDEDAQKAYRYL 136
Y+T+ EDA +A + +
Sbjct: 67 YVTYIRSEDALRAIQCV 83
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 98
Score = 27.2 bits (61), Expect = 0.87
Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 19/71 (26%)
Query: 87 IPDSTPLEEIRGLFSGKSCPRFISCEF-------AHNNSW---YITFENDEDAQKAYRYL 136
+ ST E ++G+FS SC S ++ ++ E AQKA
Sbjct: 13 LNFSTTEETLKGVFS--KVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA---- 66
Query: 137 REDVREFQNKE 147
+++ Q
Sbjct: 67 ---LKQLQGHT 74
>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 = 28.4 bits (64), Expect = 0.87
Identities = 18/79 (22%), Positives = 26/79 (32%), Gaps = 6/79 (7%)
Query: 63 NVQVDEEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFS----GKSCPRFISCEFAHNNS 118
+ V + I V C + + P S IR L R S F +
Sbjct: 102 HKVVGQNEIIVSH-LTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRR 160
Query: 119 W-YITFENDEDAQKAYRYL 136
+ YI + EDA+ L
Sbjct: 161 FAYIDVTSKEDARYCVEKL 179
Score = 25.3 bits (56), Expect = 7.6
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 7/51 (13%)
Query: 87 IPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW-----YITFENDEDAQKA 132
+P S ++ F C I + A + I F + A A
Sbjct: 49 LPKSYNQNKVYKYFK--HCGPIIHVDVADSLKKNFRFARIEFARYDGALAA 97
>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 = 27.2 bits (61), Expect = 1.1
Identities = 5/17 (29%), Positives = 11/17 (64%)
Query: 120 YITFENDEDAQKAYRYL 136
++ F ++EDA+ A +
Sbjct: 58 FVDFNSEEDAKAAKEAM 74
>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 = 26.8 bits (60), Expect = 1.2
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 15/56 (26%)
Query: 87 IPDSTPLEEIRGLFS--GKSCPRFISCE----FAHNNSWYITFENDEDAQKAYRYL 136
+ + +E+R LF G R I C+ +A ++ E + DA+ A L
Sbjct: 17 VSAACTSQELRSLFERRG----RVIECDVVKDYA-----FVHMEKEADAKAAIAQL 63
>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 = 26.8 bits (60), Expect = 1.2
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 15/56 (26%)
Query: 87 IPDSTPLEEIRGLFS--GKSCPRFISCE----FAHNNSWYITFENDEDAQKAYRYL 136
+P +EIR LF G + + C+ + ++ E+ A+ A R L
Sbjct: 16 LPREATEQEIRSLFEQYG----KVLECDIIKNYG-----FVHIEDKTAAEDAIRNL 62
>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 = 26.8 bits (60), Expect = 1.2
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 120 YITFENDEDAQKAYRYL 136
++ FEN +DA++A
Sbjct: 61 FVYFENVDDAKEAKERA 77
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 27.0 bits (60), Expect = 1.3
Identities = 9/69 (13%), Positives = 19/69 (27%), Gaps = 5/69 (7%)
Query: 80 CIVILREIPDSTPLEEIRGLFS--GKSCPRFISCEFAHNNSWYITFENDEDAQKAYRYLR 137
+V +R + D ++ G + + FE+ A A Y
Sbjct: 22 PVVHIRGLIDGVVEADLVEALQEFGPISYVVV---MPKKRQALVEFEDVLGACNAVNYAA 78
Query: 138 EDVREFQNK 146
++
Sbjct: 79 DNQIYIAGH 87
>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 = 27.7 bits (61), Expect = 1.3
Identities = 8/51 (15%), Positives = 15/51 (29%), Gaps = 4/51 (7%)
Query: 88 PDSTPLEEIRGLFSGKSCPRFISCEFAHNNSWY--ITFENDEDAQKAYRYL 136
P+ + + LF + N + + AQ A +L
Sbjct: 44 PERVTPQSLFILFG--VYGDVQRVKILFNKKENALVQMADGNQAQLAMSHL 92
>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- cell division, DNA translocation,
KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas
aeruginosa} PDB: 2iuu_A*
Length = 574
Score = 27.7 bits (62), Expect = 1.4
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 14/57 (24%)
Query: 42 NQVKKLTKDIKL--------ITEVLRESPNVQVDEEGIKVRPNHKRCIVILREIPDS 90
+++ L KD+ + EV+ V GI++ PN R +V E+ S
Sbjct: 134 SRISNLAKDLARSLAVISVRVVEVIPGKTTV-----GIEI-PNEDRQMVRFSEVLSS 184
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome biogenesis,
RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A
Length = 111
Score = 27.1 bits (60), Expect = 1.4
Identities = 12/75 (16%), Positives = 29/75 (38%), Gaps = 4/75 (5%)
Query: 74 RPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSWY--ITFENDEDAQK 131
+ KR + ++ +P+ ++++ L S S + + F ++E +
Sbjct: 23 KLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVE 82
Query: 132 AYRYLREDVREFQNK 146
A L + EF+
Sbjct: 83 ALERL--NNIEFRGS 95
>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 = 26.8 bits (60), Expect = 1.4
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 120 YITFENDEDAQKAYRYL 136
++ F + DAQ A +
Sbjct: 59 FVRFHDRRDAQDAEAAM 75
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 26.9 bits (60), Expect = 1.5
Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 13/69 (18%)
Query: 82 VILREIPDSTPLEEIRGLFSG----KSCPRFISCEFAHNNSWYITFENDEDAQKAYRYLR 137
+ +R P E+ +F K I FA ++ FE E A KA +
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEV--KILNGFA-----FVEFEEAESAAKAIEEV- 85
Query: 138 EDVREFQNK 146
+ F N+
Sbjct: 86 -HGKSFANQ 93
>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 = 1.5
Identities = 9/65 (13%), Positives = 26/65 (40%), Gaps = 7/65 (10%)
Query: 87 IPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW----YITFENDEDAQKAYRYLREDVRE 142
P L++I+ K I + ++ ++ F++ E A+K + ++
Sbjct: 19 FPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF---VETPGQK 75
Query: 143 FQNKE 147
++ +
Sbjct: 76 YKETD 80
>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 = 26.9 bits (60), Expect = 1.6
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 11/50 (22%)
Query: 87 IPDSTPLEEIRGLFSG----KSCPRFISCEFAHNNSWYITFENDEDAQKA 132
+ ++ E + FS + ++A +I F+ + A KA
Sbjct: 19 LANTVTEEILEKAFSQFGKLERV--KKLKDYA-----FIHFDERDGAVKA 61
>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 = 26.7 bits (59), Expect = 1.7
Identities = 14/71 (19%), Positives = 26/71 (36%), Gaps = 8/71 (11%)
Query: 70 GIKVRPNHK-RCIVILREIPDSTPLEEIRGLFSGKSCP------RFISCEFAHNNSW-YI 121
G K+ ++ + +P S +E++ FS F+ I
Sbjct: 1 GSKLEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALI 60
Query: 122 TFENDEDAQKA 132
E+++D QKA
Sbjct: 61 EMESEQDVQKA 71
>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 = 26.8 bits (59), Expect = 1.7
Identities = 11/68 (16%), Positives = 22/68 (32%), Gaps = 5/68 (7%)
Query: 81 IVILREIPDSTPLEEIRGLFS--GKSCPRFISCEFAHNNSWYITFENDEDAQKAYRYLRE 138
++ +R++P E+ L GK + N +I +E A Y
Sbjct: 33 VIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK---NQAFIEMNTEEAANTMVNYYTS 89
Query: 139 DVREFQNK 146
+ +
Sbjct: 90 VTPVLRGQ 97
>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- binding, cell division, transmembrane,
inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB:
2j5p_A*
Length = 512
Score = 27.6 bits (62), Expect = 1.8
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 14/57 (24%)
Query: 42 NQVKKLTKDIKL--------ITEVLRESPNVQVDEEGIKVRPNHKRCIVILREIPDS 90
++ L++D+ + EV+ P V G+++ PN KR V LRE+ D+
Sbjct: 87 ARISNLSRDLARSLSTVAVRVVEVIPGKPYV-----GLEL-PNKKRQTVYLREVLDN 137
>4g6c_A Beta-hexosaminidase 1; ssgcid, niaid, structural genomics, Na
institute of allergy and infectious diseases; 1.38A
{Burkholderia cenocepacia}
Length = 342
Score = 27.6 bits (62), Expect = 1.8
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 38 VANFNQVKKLTKDIKLITEVLRESPNVQVDEEG 70
N Q+ LT I+ + RE + VD EG
Sbjct: 40 FQNRAQLTALTDSIRAV----REDILIAVDHEG 68
>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 = 26.7 bits (59), Expect = 2.0
Identities = 13/82 (15%), Positives = 25/82 (30%), Gaps = 7/82 (8%)
Query: 73 VRPNHKRCIVILREIPDSTPLEEIRGLFS--GKSCPRFISCEFAHNNSW-----YITFEN 125
+ C + + IP EEI + + I A + ++ +E+
Sbjct: 2 SSGSSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYES 61
Query: 126 DEDAQKAYRYLREDVREFQNKE 147
A A R L + +
Sbjct: 62 HRAAAMARRKLMPGRIQLWGHQ 83
>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 = 26.4 bits (59), Expect = 2.0
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 120 YITFENDEDAQKA 132
+I+F EDA +A
Sbjct: 61 FISFHRREDAARA 73
>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 = 26.3 bits (58), Expect = 2.1
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 5/68 (7%)
Query: 81 IVILREIPDSTPLEEIRGLFS--GKSCPRFISCEFAHNNSWYITFENDEDAQKAYRYLRE 138
++ +R++P E+ L GK + N ++ +E A Y
Sbjct: 17 VLHIRKLPGEVTETEVIALGLPFGKVTNILM---LKGKNQAFLELATEEAAITMVNYYSA 73
Query: 139 DVREFQNK 146
+N+
Sbjct: 74 VTPHLRNQ 81
>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 = 26.8 bits (59), Expect = 2.2
Identities = 16/84 (19%), Positives = 26/84 (30%), Gaps = 6/84 (7%)
Query: 55 TEVLRESPNVQVDEEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFA 114
T + E + P + V + ++ E+ F S A
Sbjct: 51 TFTVTEGSHHHHHHMHRDSCPLDCKVYV--GNLGNNGNKTELERAFGY--YGPLRSVWVA 106
Query: 115 HNNSWY--ITFENDEDAQKAYRYL 136
N + + FE+ DA A R L
Sbjct: 107 RNPPGFAFVEFEDPRDAADAVREL 130
>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 = 26.1 bits (58), Expect = 2.4
Identities = 6/28 (21%), Positives = 11/28 (39%), Gaps = 7/28 (25%)
Query: 120 YITFENDEDAQKAYRYLREDVREFQNKE 147
+ FE DA KA ++++
Sbjct: 74 DVHFERKADALKA-------MKQYNGVP 94
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein;
NMR {Homo sapiens}
Length = 101
Score = 26.1 bits (58), Expect = 2.7
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 120 YITFENDEDAQKAYRYL 136
++ FE+ DA+ A R L
Sbjct: 41 FVEFEDPRDAEDAVRGL 57
>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 = 26.1 bits (58), Expect = 2.9
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 120 YITFENDEDAQKA 132
Y+ FE+ ED +KA
Sbjct: 62 YVDFESAEDLEKA 74
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 26.1 bits (57), Expect = 3.1
Identities = 13/74 (17%), Positives = 25/74 (33%), Gaps = 4/74 (5%)
Query: 61 SPNVQVDEEGIKVRPNHKRCIVILREIPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW- 119
+ VD + I++ + L+ + +FS I F NN +
Sbjct: 11 ASAAAVDAGMAMAGQSPVLRIIVEN-LFYPVTLDVLHQIFSKFGTVLKIIT-FTKNNQFQ 68
Query: 120 -YITFENDEDAQKA 132
+ + + AQ A
Sbjct: 69 ALLQYADPVSAQHA 82
>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 = 25.7 bits (57), Expect = 3.3
Identities = 7/54 (12%), Positives = 20/54 (37%), Gaps = 9/54 (16%)
Query: 87 IPDSTPLEEIRGLFS--GKSCPRFISCE--FAHNNSWYITFENDEDAQKAYRYL 136
+ + +++R LF + + +A ++ + + A +A L
Sbjct: 16 LSPAVTADDLRQLFGDRKLPLAGQVLLKSGYA-----FVDYPDQNWAIRAIETL 64
>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 = 25.6 bits (57), Expect = 3.4
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 120 YITFENDEDAQKA 132
++ FE EDA A
Sbjct: 58 FVEFELAEDAAAA 70
>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 = 25.8 bits (57), Expect = 3.5
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 120 YITFENDEDAQKAYRYL 136
+ITFEN DA+ A + +
Sbjct: 52 FITFENPADAKNAAKDM 68
>3g8r_A Probable spore coat polysaccharide biosynthesis P; structural
genomics, protein structure initiative; 2.49A
{Chromobacterium violaceum atcc 12472}
Length = 350
Score = 26.4 bits (59), Expect = 4.1
Identities = 8/49 (16%), Positives = 17/49 (34%)
Query: 40 NFNQVKKLTKDIKLITEVLRESPNVQVDEEGIKVRPNHKRCIVILREIP 88
N QV++ +L + + V E + +R + R +
Sbjct: 241 NPEQVRRWLAAAARALAMLGDGEDDAVSETEQASLRSLRRGVFATRPVA 289
>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 = 26.0 bits (57), Expect = 4.3
Identities = 8/51 (15%), Positives = 15/51 (29%), Gaps = 4/51 (7%)
Query: 88 PDSTPLEEIRGLFSGKSCPRFISCEFAHNNSWY--ITFENDEDAQKAYRYL 136
P+ + + LF + N + + AQ A +L
Sbjct: 13 PERVTPQSLFILFG--VYGDVQRVKILFNKKENALVQMADGNQAQLAMSHL 61
>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 = 25.7 bits (57), Expect = 4.3
Identities = 8/54 (14%), Positives = 18/54 (33%), Gaps = 6/54 (11%)
Query: 87 IPDSTPLEEIRGLFSGKSCPRFISCEFAHNNSW----YITFENDEDAQKAYRYL 136
+P ++I +F + + ++ FE+ DA+ A
Sbjct: 30 LPPDIRTKDIEDVFYK--YGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGR 81
>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 = 26.0 bits (58), Expect = 4.5
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 120 YITFENDEDAQKA 132
Y+ FE+ ED +KA
Sbjct: 58 YVDFESAEDLEKA 70
>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 = 25.2 bits (56), Expect = 4.6
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 2/30 (6%)
Query: 120 YITFENDEDAQKAYRYLREDVREFQNKESK 149
++ F++ AQKA L Q + +K
Sbjct: 51 FVDFDSPSAAQKAVTAL--KASGVQAQMAK 78
>1qvb_A Beta-glycosidase; TIM-barrel, thermostable, hydrolase; 2.40A
{Thermosphaera aggregans} SCOP: c.1.8.4
Length = 481
Score = 26.1 bits (58), Expect = 4.8
Identities = 2/23 (8%), Positives = 7/23 (30%)
Query: 114 AHNNSWYITFENDEDAQKAYRYL 136
+ W+ E + ++
Sbjct: 263 IYAFQWFELLEGPAEVFDKFKSS 285
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 25.3 bits (56), Expect = 4.9
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 120 YITFENDEDAQKAYRYL 136
Y+ +EN+ A +A +
Sbjct: 62 YVEYENESQASQAVMKM 78
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 97
Score = 25.2 bits (55), Expect = 5.0
Identities = 9/70 (12%), Positives = 20/70 (28%), Gaps = 10/70 (14%)
Query: 72 KVRPNHKRCIVILREIPDSTPLEEIRGLFS--GKSCPRFISCE---FAHNNSWYITFEND 126
V + +P + +++ G R A ++ + +
Sbjct: 12 PGEGAPLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPRRRA-----FLHYPDS 66
Query: 127 EDAQKAYRYL 136
AQ+A L
Sbjct: 67 AAAQQAVSCL 76
>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 = 25.3 bits (56), Expect = 5.4
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 121 ITFENDEDAQKAYRYL 136
ITF N E A +A +
Sbjct: 72 ITFPNKEIAWQALHLV 87
>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 = 25.3 bits (56), Expect = 5.4
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 120 YITFENDEDAQKAYRYL 136
++TFEN DA +A L
Sbjct: 59 FVTFENSADADRAREKL 75
>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 = 24.8 bits (55), Expect = 5.7
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 120 YITFENDEDAQKA 132
++ FE EDA A
Sbjct: 53 FVEFELAEDAAAA 65
>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 = 24.9 bits (55), Expect = 6.3
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 121 ITFENDEDAQKA 132
++F ND D QK
Sbjct: 55 VSFYNDVDVQKI 66
>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 = 25.0 bits (55), Expect = 6.7
Identities = 5/17 (29%), Positives = 6/17 (35%)
Query: 120 YITFENDEDAQKAYRYL 136
+ F E AQK
Sbjct: 61 FAQFMTQEAAQKCLAAA 77
>3qv2_A 5-cytosine DNA methyltransferase; DNMT2, ehmeth; HET: SAH; 2.15A
{Entamoeba histolytica}
Length = 327
Score = 25.9 bits (57), Expect = 6.8
Identities = 10/64 (15%), Positives = 18/64 (28%), Gaps = 23/64 (35%)
Query: 99 LFSG---------KSCPRFISCEFAHNNSWYITFENDEDAQKAYRY------LREDVREF 143
FSG +S + F+ +E A K Y +++
Sbjct: 16 FFSGIGGLRSSYERSSININATFIP--------FDINEIANKIYSKNFKEEVQVKNLDSI 67
Query: 144 QNKE 147
K+
Sbjct: 68 SIKQ 71
>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 = 25.0 bits (55), Expect = 6.9
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 7/28 (25%)
Query: 120 YITFENDEDAQKAYRYLREDVREFQNKE 147
+ FE DA KA +++++
Sbjct: 80 DVHFERRADALKA-------MKQYKGVP 100
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 25.0 bits (55), Expect = 7.9
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 120 YITFENDEDAQKA 132
++TFEN DA +A
Sbjct: 73 FVTFENSADADRA 85
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 25.5 bits (55), Expect = 8.0
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 11/30 (36%)
Query: 107 RFISCEFAHNNSWYITFENDEDAQKAYRYL 136
R +S E + QK ++L
Sbjct: 146 RIVSG-----------LELSDTKQKGKKFL 164
>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 = 24.4 bits (54), Expect = 8.0
Identities = 5/13 (38%), Positives = 9/13 (69%)
Query: 120 YITFENDEDAQKA 132
+++F N DA+ A
Sbjct: 52 FVSFFNKWDAENA 64
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 25.1 bits (55), Expect = 8.2
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 120 YITFENDEDAQKA 132
++ FE EDA A
Sbjct: 109 FVEFELAEDAAAA 121
>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 = 24.4 bits (54), Expect = 8.4
Identities = 5/13 (38%), Positives = 10/13 (76%)
Query: 120 YITFENDEDAQKA 132
+++F + +DAQ A
Sbjct: 47 FVSFTSQDDAQNA 59
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 25.4 bits (56), Expect = 8.4
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 120 YITFENDEDAQKA 132
+I +E + +Q A
Sbjct: 171 FIEYEKAQSSQDA 183
>2ww4_A 4-diphosphocytidyl-2C-methyl-D-erythritol kinase; non-mevalonate
pathway, isoprenoid biosynthesis, transferase; HET: ADP;
2.00A {Escherichia coli} PDB: 1oj4_A*
Length = 283
Score = 25.3 bits (56), Expect = 8.7
Identities = 4/24 (16%), Positives = 11/24 (45%)
Query: 120 YITFENDEDAQKAYRYLREDVREF 143
+ F+ + +A++ E + F
Sbjct: 245 FAEFDTESEARQVLEQAPEWLNGF 268
>3gjx_B Snurportin-1; transport, cytoplasm, nucleus, RNA-binding,
acetylation, GTP-binding, HOST-virus interaction,
nucleotide-binding, phosphoprotein; HET: GTP; 2.50A
{Homo sapiens} PDB: 3nby_B* 3nbz_B* 3nc0_B* 3gb8_B
2qna_B
Length = 365
Score = 25.6 bits (55), Expect = 8.7
Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 4/71 (5%)
Query: 16 NLANDAYLLSQMDNDQYVPIWTVANFNQVKKLTKDIK---LITEVLRESPNVQVDEEGIK 72
LA D + ++ + + VKKL K +++E L + P+ E +
Sbjct: 69 RLAEDDWT-GMESEEENKKDDEEMDIDTVKKLPKHYANQLMLSEWLIDVPSDLGQEWIVV 127
Query: 73 VRPNHKRCIVI 83
V P KR +++
Sbjct: 128 VCPVGKRALIV 138
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 25.1 bits (55), Expect = 8.8
Identities = 4/17 (23%), Positives = 9/17 (52%)
Query: 120 YITFENDEDAQKAYRYL 136
++ F + DA+ A +
Sbjct: 93 FVRFHDKRDAEDAMDAM 109
>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 = 24.2 bits (53), Expect = 8.9
Identities = 8/50 (16%), Positives = 17/50 (34%), Gaps = 9/50 (18%)
Query: 87 IPDSTPLEEIRGLFSGKSCPRF---ISCEFAHN-NSWYITFENDEDAQKA 132
+ D+ ++R F +F + +I F + A+ A
Sbjct: 20 LGDTITETDLRNHFY-----QFGEIRTITVVQRQQCAFIQFATRQAAEVA 64
>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 = 24.5 bits (54), Expect = 9.8
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 120 YITFENDEDAQKAYRYL 136
++ F+ A A R +
Sbjct: 55 FVIFKEVSSATNALRSM 71
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
0.320 0.135 0.411
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,293,544
Number of extensions: 127400
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 494
Number of HSP's successfully gapped: 124
Length of query: 149
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 64
Effective length of database: 4,328,508
Effective search space: 277024512
Effective search space used: 277024512
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 (21.8 bits)
S2: 53 (24.1 bits)