RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16116
(612 letters)
>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 = 140 bits (354), Expect = 1e-39
Identities = 42/143 (29%), Positives = 69/143 (48%), Gaps = 12/143 (8%)
Query: 394 MALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLT---RGAQVIIRMRGLPYEC 450
M H HH + G ++ GG + + G ++++RGLP+ C
Sbjct: 1 MGSSHHHHHHSSGLV----PRGSHMASMTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSC 56
Query: 451 TAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSKHKES 510
+ + V +F C + DG GV F+ +G+ +G+AFV E++ AL K +ES
Sbjct: 57 SVEDVQNFLS-----DCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRES 111
Query: 511 IGIRYIELFRSTTAEVQQVLNKT 533
+G RYIE+F+S E+ VL +
Sbjct: 112 MGHRYIEVFKSHRTEMDWVLKHS 134
Score = 69.3 bits (169), Expect = 2e-14
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
E + FL + + GVH +Y +G+ SGEAF+++ SE +A + + +M
Sbjct: 59 EDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESM----G 113
Query: 123 QRYIEVFQCSGEDMNLVLNGVLP 145
RYIEVF+ +M+ VL P
Sbjct: 114 HRYIEVFKSHRTEMDWVLKHSGP 136
Score = 55.0 bits (132), Expect = 3e-09
Identities = 20/64 (31%), Positives = 31/64 (48%)
Query: 358 GYEQVLGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGED 417
G GV + GR++GEA V ++ MALK+ + + RYIEV K++ +
Sbjct: 67 DCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRTE 126
Query: 418 FINV 421
V
Sbjct: 127 MDWV 130
>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 = 140 bits (354), Expect = 2e-39
Identities = 38/145 (26%), Positives = 59/145 (40%), Gaps = 18/145 (12%)
Query: 394 MALKRHKHHIDKRYIEVTKANGEDFINVAGG-----NNNEAQAFLTRGAQVIIRMRGLPY 448
M H HH + G ++ GG + +++ + + MRGLPY
Sbjct: 1 MGSSHHHHHHSSGLV----PRGSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPY 56
Query: 449 ECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSKHK 508
+ T + +FF V PDG+ TG+A V F EEA A+SK +
Sbjct: 57 KATENDIYNFFSPL---------NPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDR 107
Query: 509 ESIGIRYIELFRSTTAEVQQVLNKT 533
++ RYIELF ++T +
Sbjct: 108 ANMQHRYIELFLNSTTGASNGAYSS 132
Score = 59.9 bits (145), Expect = 5e-11
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 9/75 (12%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
I F N V VH+ G+ +GEA ++ + A +AA + NM +
Sbjct: 61 NDIYNFFSPL--NPV--RVHIEIGPDGRVTGEADVEFATHEEA-VAAMSKDRANM----Q 111
Query: 123 QRYIEVFQCSGEDMN 137
RYIE+F S +
Sbjct: 112 HRYIELFLNSTTGAS 126
Score = 55.2 bits (133), Expect = 2e-09
Identities = 17/63 (26%), Positives = 27/63 (42%)
Query: 363 LGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVA 422
L V + + GR GEA V F E A+ + + ++ RYIE+ + N A
Sbjct: 70 LNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTTGASNGA 129
Query: 423 GGN 425
+
Sbjct: 130 YSS 132
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 139 bits (352), Expect = 2e-39
Identities = 64/116 (55%), Positives = 80/116 (68%), Gaps = 4/116 (3%)
Query: 420 NVAGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFV 479
+ GG +NE FL++ QVI+RMRGLP+ TA++V+ FF C + G+EG+LFV
Sbjct: 5 SSGGGTSNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFG----QHCPITGGKEGILFV 60
Query: 480 KKPDGKATGDAFVLFEKEEEADKALSKHKESIGIRYIELFRSTTAEVQQVLNKTME 535
PDG+ TGDAFVLF EE A AL KHK+ +G RYIELFRST AEVQQVLN+
Sbjct: 61 TYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFRSTAAEVQQVLNRFSS 116
Score = 68.4 bits (167), Expect = 4e-14
Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 63 EHILEFLGEFAS-NIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGK 121
E ++ F G+ +G+ V G+P+G+AF+ E A A + +H +
Sbjct: 38 EEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALR-KHKDLL---- 92
Query: 122 KQRYIEVFQCSGEDMNLVLNGVLPPTSPA 150
+RYIE+F+ + ++ VLN + P+
Sbjct: 93 GKRYIELFRSTAAEVQQVLNRFSSASGPS 121
Score = 54.1 bits (130), Expect = 3e-09
Identities = 19/58 (32%), Positives = 30/58 (51%)
Query: 364 GLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINV 421
G G+ GR G+A V F +E+ AL++HK + KRYIE+ ++ + V
Sbjct: 53 GKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFRSTAAEVQQV 110
>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 = 133 bits (335), Expect = 6e-37
Identities = 45/135 (33%), Positives = 66/135 (48%), Gaps = 12/135 (8%)
Query: 394 MALKRHKHHIDKRYIEVTKANGEDFINVAGGNN-NEAQAFLTRGAQVIIRMRGLPYECTA 452
M H HH + G ++ GG +R+RGLP+ CT
Sbjct: 1 MGSSHHHHHHSSGLV----PRGSHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTK 56
Query: 453 KQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSKHKESIG 512
++++ FF ++ G+ P+GK TG+AFV F +E A+KAL KHKE IG
Sbjct: 57 EEIVQFFS-----GLEIV--PNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIG 109
Query: 513 IRYIELFRSTTAEVQ 527
RYIE+F+S+ EV+
Sbjct: 110 HRYIEVFKSSQEEVR 124
Score = 64.5 bits (157), Expect = 9e-13
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
E I++F IV G+ + + +G+ +GEAF+Q S+ A A +H +
Sbjct: 57 EEIVQFFSGL--EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG-KHKERI----G 109
Query: 123 QRYIEVFQCSGEDMN 137
RYIEVF+ S E++
Sbjct: 110 HRYIEVFKSSQEEVR 124
Score = 55.7 bits (134), Expect = 1e-09
Identities = 22/54 (40%), Positives = 32/54 (59%)
Query: 367 GVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFIN 420
G+ L + G+ GEA V+F QE + AL +HK I RYIEV K++ E+ +
Sbjct: 72 GITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQEEVRS 125
>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 = 121 bits (304), Expect = 8e-33
Identities = 38/112 (33%), Positives = 63/112 (56%), Gaps = 7/112 (6%)
Query: 424 GNNNEAQAFLTR--GAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKK 481
G++ + L G ++++RGLP+ C+ + V +F C + DG GV F+
Sbjct: 1 GSSGSSGMMLGPEGGEGYVVKLRGLPWSCSIEDVQNFLS-----DCTIHDGVAGVHFIYT 55
Query: 482 PDGKATGDAFVLFEKEEEADKALSKHKESIGIRYIELFRSTTAEVQQVLNKT 533
+G+ +G+AFV E E++ AL K +ES+G RYIE+F+S E+ VL +
Sbjct: 56 REGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRTEMDWVLKHS 107
Score = 70.7 bits (173), Expect = 5e-15
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 5/91 (5%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
E + FL + + GVH +Y +G+ SGEAF++++SE LA + + +M
Sbjct: 32 EDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESM----G 86
Query: 123 QRYIEVFQCSGEDMNLVLNGVLPPTSPAISP 153
RYIEVF+ +M+ VL P ++ S
Sbjct: 87 HRYIEVFKSHRTEMDWVLKHSGPNSASGPSS 117
Score = 55.3 bits (133), Expect = 1e-09
Identities = 20/79 (25%), Positives = 37/79 (46%)
Query: 358 GYEQVLGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGED 417
G+ GV + GR++GEA V ++ +ALK+ + + RYIEV K++ +
Sbjct: 40 DCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRTE 99
Query: 418 FINVAGGNNNEAQAFLTRG 436
V + + + + G
Sbjct: 100 MDWVLKHSGPNSASGPSSG 118
>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 = 120 bits (303), Expect = 8e-33
Identities = 34/106 (32%), Positives = 51/106 (48%), Gaps = 10/106 (9%)
Query: 423 GGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKP 482
G + + +F + + MRGLPY T + +FF N M V P
Sbjct: 1 GSSGSSGSSFQSTTGHCV-HMRGLPYRATENDIYNFFS-----PLNPMR----VHIEIGP 50
Query: 483 DGKATGDAFVLFEKEEEADKALSKHKESIGIRYIELFRSTTAEVQQ 528
DG+ TG+A V F E+A A++K K ++ RY+ELF ++TA
Sbjct: 51 DGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNSTAGTSG 96
Score = 61.6 bits (150), Expect = 5e-12
Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 9/75 (12%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
I F N + VH+ G+ +GEA ++ + A +AA + NM +
Sbjct: 30 NDIYNFFSPL--NPM--RVHIEIGPDGRVTGEADVEFATHEDA-VAAMAKDKANM----Q 80
Query: 123 QRYIEVFQCSGEDMN 137
RY+E+F S +
Sbjct: 81 HRYVELFLNSTAGTS 95
Score = 52.8 bits (127), Expect = 7e-09
Identities = 15/55 (27%), Positives = 24/55 (43%)
Query: 363 LGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGED 417
L V + + GR GEA V F E A+ + K ++ RY+E+ +
Sbjct: 39 LNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNSTAG 93
>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 = 118 bits (297), Expect = 5e-32
Identities = 33/94 (35%), Positives = 54/94 (57%), Gaps = 5/94 (5%)
Query: 440 IIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+IR +GLP+ CT + V++FF C + +GE G+ F+ DGK GDA + E E++
Sbjct: 13 LIRAQGLPWSCTMEDVLNFFS-----DCRIRNGENGIHFLLNRDGKRRGDALIEMESEQD 67
Query: 500 ADKALSKHKESIGIRYIELFRSTTAEVQQVLNKT 533
KAL KH+ +G RY+E++ +V ++
Sbjct: 68 VQKALEKHRMYMGQRYVEVYEINNEDVDALMKSL 101
Score = 74.5 bits (183), Expect = 2e-16
Identities = 25/87 (28%), Positives = 45/87 (51%), Gaps = 5/87 (5%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
E +L F + G+H + N G+ G+A I+M+SE A + +H M
Sbjct: 26 EDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYM----G 80
Query: 123 QRYIEVFQCSGEDMNLVLNGVLPPTSP 149
QRY+EV++ + ED++ ++ + +SP
Sbjct: 81 QRYVEVYEINNEDVDALMKSLQVKSSP 107
Score = 59.9 bits (145), Expect = 2e-11
Identities = 17/61 (27%), Positives = 33/61 (54%)
Query: 358 GYEQVLGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGED 417
G G+ L+ G+R G+A++ ++ AL++H+ ++ +RY+EV + N ED
Sbjct: 34 DCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEVYEINNED 93
Query: 418 F 418
Sbjct: 94 V 94
>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 = 113 bits (285), Expect = 2e-30
Identities = 37/105 (35%), Positives = 60/105 (57%), Gaps = 7/105 (6%)
Query: 424 GNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPD 483
G++ + +R+RGLP+ C+ ++++ FF ++ G+
Sbjct: 1 GSSGSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFS-----GLEIV--PNGMTLPVDFQ 53
Query: 484 GKATGDAFVLFEKEEEADKALSKHKESIGIRYIELFRSTTAEVQQ 528
G++TG+AFV F +E A+KAL KHKE IG RYIE+F+S+ AEV+
Sbjct: 54 GRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAEVRT 98
Score = 67.5 bits (165), Expect = 4e-14
Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 7/75 (9%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
E I++F IV G+ + + QG+ +GEAF+Q S+ A A + +H +
Sbjct: 30 EEIVQFFSGL--EIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERI----G 82
Query: 123 QRYIEVFQCSGEDMN 137
RYIE+F+ S ++
Sbjct: 83 HRYIEIFKSSRAEVR 97
Score = 60.9 bits (148), Expect = 8e-12
Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 366 GGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGN 425
G+ L + GR GEA V+F QE + ALK+HK I RYIE+ K++ + + +G +
Sbjct: 44 NGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRAE-VRTSGPS 102
Query: 426 N 426
+
Sbjct: 103 S 103
>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 = 107 bits (270), Expect = 2e-28
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 440 IIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+++RG P+ T K V++F + + V+ G TG FV F EEE
Sbjct: 12 TVKLRGAPFNVTEKNVMEFLA-----PLKPVA----IRIVRNAHGNKTGYIFVDFSNEEE 62
Query: 500 ADKALSKHKESIGIRYIELFRSTTAE 525
+AL ++E +G RYIE+FR +
Sbjct: 63 VKQALKCNREYMGGRYIEVFREKSGP 88
Score = 59.2 bits (144), Expect = 3e-11
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 9/70 (12%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
++++EFL V + +V N+ G +G F+ +E A + M
Sbjct: 25 KNVMEFLAPL--KPV--AIRIVRNAHGNKTGYIFVDFSNEEEV-KQALKCNREYM----G 75
Query: 123 QRYIEVFQCS 132
RYIEVF+
Sbjct: 76 GRYIEVFREK 85
Score = 52.7 bits (127), Expect = 4e-09
Identities = 15/52 (28%), Positives = 26/52 (50%)
Query: 363 LGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKAN 414
L + + +A G + G V F ++E ALK ++ ++ RYIEV +
Sbjct: 34 LKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFREK 85
Score = 29.2 bits (66), Expect = 1.1
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 573 TSGTRKDCIRLRGLPYEA 590
+SGT ++LRG P+
Sbjct: 5 SSGTTCHTVKLRGAPFNV 22
>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 = 108 bits (271), Expect = 3e-28
Identities = 30/98 (30%), Positives = 53/98 (54%), Gaps = 7/98 (7%)
Query: 437 AQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEK 496
A + ++GLP+E K VIDFF+ +++ E+ + P+GKATG+ FV F
Sbjct: 24 AGFCVYLKGLPFEAENKHVIDFFK-----KLDIV--EDSIYIAYGPNGKATGEGFVEFRN 76
Query: 497 EEEADKALSKHKESIGIRYIELFRSTTAEVQQVLNKTM 534
E + AL +HK+ +G R+I++ T + + ++
Sbjct: 77 EADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIR 114
Score = 64.5 bits (157), Expect = 9e-13
Identities = 16/74 (21%), Positives = 37/74 (50%), Gaps = 7/74 (9%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
+H+++F + +IV +++ Y G+ +GE F++ +E A L ++ +
Sbjct: 40 KHVIDFFKKL--DIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAA--LCRHKQYMGN-- 93
Query: 123 QRYIEVFQCSGEDM 136
R+I+V + + M
Sbjct: 94 -RFIQVHPITKKGM 106
Score = 64.5 bits (157), Expect = 9e-13
Identities = 15/71 (21%), Positives = 28/71 (39%)
Query: 366 GGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGN 425
+ + G+ GE V F ++ AL RHK ++ R+I+V + +
Sbjct: 54 DSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMI 113
Query: 426 NNEAQAFLTRG 436
Q+ + G
Sbjct: 114 RKRLQSGPSSG 124
>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 = 107 bits (269), Expect = 5e-28
Identities = 22/111 (19%), Positives = 46/111 (41%), Gaps = 7/111 (6%)
Query: 424 GNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPD 483
G++ + A+V + +P+ T V+ F E V E V + +
Sbjct: 1 GSSGSSGEGDVNSAKVCAHITNIPFSITKMDVLQFLE-----GIPVD--ENAVHVLVDNN 53
Query: 484 GKATGDAFVLFEKEEEADKALSKHKESIGIRYIELFRSTTAEVQQVLNKTM 534
G+ G A V F+ E++A K+ H++ + R + T +++++
Sbjct: 54 GQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEKNPP 104
Score = 64.0 bits (156), Expect = 1e-12
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
+L+FL + VH++ ++ GQ G+A +Q +E A + R +R + G
Sbjct: 30 MDVLQFLEGI--PVDENAVHVLVDNNGQGLGQALVQFKNEDDARKS--ERLHRKKLNG-- 83
Query: 123 QRYIEVFQCSGEDM 136
R V + EDM
Sbjct: 84 -REAFVHVVTLEDM 96
Score = 53.2 bits (128), Expect = 5e-09
Identities = 11/52 (21%), Positives = 25/52 (48%)
Query: 366 GGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGED 417
V + + G+ G+A+V+F +++ + + H+ ++ R V ED
Sbjct: 44 NAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLED 95
>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 = 102 bits (257), Expect = 2e-26
Identities = 21/116 (18%), Positives = 44/116 (37%), Gaps = 9/116 (7%)
Query: 423 GGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKP 482
G + + + + + + G+P+ V DFF V + V +K
Sbjct: 1 GSSGSSGKPLPINPDDLYVSVHGMPFSAMENDVRDFFH-----GLRV----DAVHLLKDH 51
Query: 483 DGKATGDAFVLFEKEEEADKALSKHKESIGIRYIELFRSTTAEVQQVLNKTMELPK 538
G+ G+ V F ++ +AL +++ + RY+E+ +T + P
Sbjct: 52 VGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPATERQWVAAGGHITSGPS 107
Score = 70.9 bits (174), Expect = 3e-15
Identities = 19/67 (28%), Positives = 33/67 (49%)
Query: 363 LGLGGVALCLSAFGRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVA 422
L + V L GR NG +V+F+ + ALKR++ + +RY+EV+ A ++
Sbjct: 40 LRVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPATERQWVAAG 99
Query: 423 GGNNNEA 429
G +
Sbjct: 100 GHITSGP 106
Score = 60.9 bits (148), Expect = 9e-12
Identities = 16/87 (18%), Positives = 33/87 (37%), Gaps = 10/87 (11%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
+ +F + VH++ + G+ +G ++ S + A + R+ M
Sbjct: 31 NDVRDFFHGL--RVD--AVHLLKDHVGRNNGNGLVKFLSPQDTFEALK-RNRMLM----I 81
Query: 123 QRYIEVFQCSGEDMNLVLNGVLP-PTS 148
QRY+EV + + P+S
Sbjct: 82 QRYVEVSPATERQWVAAGGHITSGPSS 108
>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 = 97.4 bits (243), Expect = 1e-24
Identities = 24/103 (23%), Positives = 45/103 (43%), Gaps = 8/103 (7%)
Query: 424 GNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPD 483
G++ + A + II+++ +P+ + +++DFF V+ V
Sbjct: 1 GSSGSSGASSGKPGPTIIKVQNMPFTVSIDEILDFFY-----GYQVI--PGSVCLKYNEK 53
Query: 484 GKATGDAFVLFEKEEEADKALSK-HKESIGIRYIELFRSTTAE 525
G TG+A V FE +EA A+ + IG R ++L +
Sbjct: 54 GMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGSGPS 96
Score = 68.5 bits (168), Expect = 2e-14
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
+ IL+F + ++ V + YN +G P+GEA + +S A A ++R +
Sbjct: 30 DEILDFFYGY--QVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPI----G 83
Query: 123 QRYIEVFQCSGE 134
R +++ SG
Sbjct: 84 SRKVKLVLGSGP 95
Score = 49.2 bits (118), Expect = 9e-08
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 366 GGVALCLSAFGRRNGEAIVRFIDQEHRDMAL-KRHKHHIDKRYIEVTKANGE 416
G V L + G GEA+V F ++ A+ + I R +++ +G
Sbjct: 44 GSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGSGP 95
>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 = 93.5 bits (233), Expect = 2e-23
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 8/85 (9%)
Query: 440 IIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+I+++ +P+ + +++DFF V+ V G TG+A V FE +E
Sbjct: 17 VIKVQNMPFTVSIDEILDFFY-----GYQVI--PGSVCLKYNEKGMPTGEAMVAFESRDE 69
Query: 500 ADKALSK-HKESIGIRYIELFRSTT 523
A A+ + IG R ++L ++
Sbjct: 70 ATAAVIDLNDRPIGSRKVKLSGPSS 94
Score = 69.3 bits (170), Expect = 9e-15
Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 6/70 (8%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
+ IL+F + ++ V + YN +G P+GEA + +S A A ++R +
Sbjct: 30 DEILDFFYGY--QVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPI----G 83
Query: 123 QRYIEVFQCS 132
R +++ S
Sbjct: 84 SRKVKLSGPS 93
Score = 48.5 bits (116), Expect = 2e-07
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 366 GGVALCLSAFGRRNGEAIVRFIDQEHRDMAL-KRHKHHIDKRYIEVTKAN 414
G V L + G GEA+V F ++ A+ + I R ++++ +
Sbjct: 44 GSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS 93
>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 = 59.6 bits (145), Expect = 2e-10
Identities = 29/154 (18%), Positives = 55/154 (35%), Gaps = 19/154 (12%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTR 435
R G V + E D A+ H +D R +E +A + G + + F+
Sbjct: 52 KRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFV-- 109
Query: 436 GAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLF 494
G+ + + D+FE G +M + GK G AFV F
Sbjct: 110 --------GGIKEDTEEHHLRDYFEQYGKIEVIEIM--------TDRGSGKKRGFAFVTF 153
Query: 495 EKEEEADKALSKHKESIGIRYIELFRSTTAEVQQ 528
+ + DK + + ++ E+ ++ + +
Sbjct: 154 DDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMA 187
Score = 44.6 bits (106), Expect = 3e-05
Identities = 23/85 (27%), Positives = 35/85 (41%), Gaps = 9/85 (10%)
Query: 445 GLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GL +E T + + FE GT C VM ++ G FV + EE D A
Sbjct: 20 GLSFETTDESLRSHFEQWGTLTDCVVM--------RDPNTKRSRGFGFVTYATVEEVDAA 71
Query: 504 LSKHKESIGIRYIELFRSTTAEVQQ 528
++ + R +E R+ + E Q
Sbjct: 72 MNARPHKVDGRVVEPKRAVSREDSQ 96
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 52.4 bits (126), Expect = 1e-08
Identities = 12/77 (15%), Positives = 27/77 (35%), Gaps = 10/77 (12%)
Query: 443 MRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
++G P + T + ++ E G + + + G FV+F+ E A
Sbjct: 16 IKGFPTDATLDDIKEWLEDKGQVLNIQMR---------RTLHKAFKGSIFVVFDSIESAK 66
Query: 502 KALSKHKESIGIRYIEL 518
K + + + +
Sbjct: 67 KFVETPGQKYKETDLLI 83
Score = 30.9 bits (70), Expect = 0.29
Identities = 15/79 (18%), Positives = 28/79 (35%), Gaps = 8/79 (10%)
Query: 54 IQGF-KKVLVEHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLR 112
I+GF ++ I E+L + ++ + M G F+ DS SA +
Sbjct: 16 IKGFPTDATLDDIKEWLEDKG-QVLN--IQMRRTLHKAFKGSIFVVFDSIESAKKFVETP 72
Query: 113 ----HNRNMIFGKKQRYIE 127
+++ K Y
Sbjct: 73 GQKYKETDLLILFKDDYFA 91
>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 = 50.6 bits (122), Expect = 1e-07
Identities = 30/148 (20%), Positives = 54/148 (36%), Gaps = 26/148 (17%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTR 435
GR G + F D +K +H +D + I+ +A D + + F+
Sbjct: 42 GRSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAIPRD------EQDKTGKIFV-- 92
Query: 436 GAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLF 494
G G+ + K+ +FF GT +M + K G++ G FV +
Sbjct: 93 G--------GIGPDVRPKEFEEFFSQWGTIIDAQLM--------LDKDTGQSRGFGFVTY 136
Query: 495 EKEEEADKALSKHKESIGIRYIELFRST 522
+ + D+ R IE+ R+
Sbjct: 137 DSADAVDRVCQNKFIDFKDRKIEIKRAE 164
Score = 41.0 bits (97), Expect = 3e-04
Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 12/67 (17%)
Query: 445 GLPYECTAKQVIDFFE-AGTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL ++ T + ++F GT +M D G++ G F+ FEK D+
Sbjct: 10 GLNWDTTEDNLREYFGKYGTVTDLKIMKD---------PATGRSRGFGFLSFEKPSSVDE 60
Query: 503 ALSK-HK 508
+ H
Sbjct: 61 VVKTQHI 67
>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 = 49.5 bits (119), Expect = 4e-07
Identities = 26/132 (19%), Positives = 47/132 (35%), Gaps = 28/132 (21%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTR 435
G V F E + AL+ + I++ K G D V
Sbjct: 51 GTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPKGRDSKKVRAART--------- 101
Query: 436 GAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLF 494
++ + L + T ++ + FE + V + DGK+ G A++ F
Sbjct: 102 ---LLAK--NLSFNITEDELKEVFEDALE------------IRLVSQ-DGKSKGIAYIEF 143
Query: 495 EKEEEADKALSK 506
+ E +A+K L +
Sbjct: 144 KSEADAEKNLEE 155
Score = 46.4 bits (111), Expect = 4e-06
Identities = 13/74 (17%), Positives = 22/74 (29%), Gaps = 10/74 (13%)
Query: 444 RGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L + ++ +N V+D G +V FE E+ +K
Sbjct: 19 GNLNPNKSVAELKVAISELFAKNDLAVVD---------VRTGTNRKFGYVDFESAEDLEK 69
Query: 503 ALSKHKESIGIRYI 516
AL + I
Sbjct: 70 ALELTGLKVFGNEI 83
>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 = 51.2 bits (122), Expect = 1e-06
Identities = 79/511 (15%), Positives = 134/511 (26%), Gaps = 194/511 (37%)
Query: 63 EHILEF-LGEFASNIVYQG--VHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNM-- 117
+ +L L EF + + +G +H + Q + ++ Y+ A++ R
Sbjct: 81 DQVLNLCLTEFENCYL-EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK 139
Query: 118 -------------------IF---GKKQRYI----EVFQCSGEDMNLVLNGVLPPTSPAI 151
IF G Y +++Q I
Sbjct: 140 KSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH-----------VLVGDLI 188
Query: 152 SPVGKTLLSPGMLPHSSQPLYPQ--------HNTQINPGLSHLD------PLVNVHLTQA 197
+TL ++ ++ Q N P +L PL+ + Q
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG--VIQL 246
Query: 198 LAQAQYAKSQQDNLMLMNQIAAQQMAALNKPHNM-----ALNGHTPTLIPA------PS- 245
A Y + A+ + P + GH+ L+ A S
Sbjct: 247 ---AHYV------------VTAKLL-GFT-PGELRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 246 -------------------------PNALMPPPLNSKST----TIPTNLPALPAVPTSGG 276
PN +PP + S +P+ P L ++ S
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS--PML-SI--SNL 344
Query: 277 YFPQFQLPINMNTAHLLQPMNTPFF---FNMPRMPV---TPQVLPKFPVH--------QL 322
Q Q +N +HL P N + V PQ L + L
Sbjct: 345 TQEQVQDYVNKTNSHL--PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 323 NQTPTVYT--IPTPGN---PVAL---CPLVQNIWLSLLLNTIPGYEQVLGLGGVALCLSA 374
+Q+ ++ N PVA LL+ + L V+
Sbjct: 403 DQSRIPFSERKLKFSNRFLPVASPFHSH--------LLVPASDLINKDLVKNNVSFNAKD 454
Query: 375 -----FGRRNG-----------EAIVRFIDQE--HRDMALKRHKHHIDKRYIEVTKANGE 416
+ +G E IV I + + + HI +
Sbjct: 455 IQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHI----L-------- 502
Query: 417 DFINVAGGNNNEAQAFLT------RGAQVII 441
DF G LT G +VI+
Sbjct: 503 DF----GPGGASGLGVLTHRNKDGTGVRVIV 529
Score = 45.8 bits (108), Expect = 4e-05
Identities = 62/425 (14%), Positives = 111/425 (26%), Gaps = 163/425 (38%)
Query: 102 EHS-------AYLAAQLRHNRNMIFGKKQRYIEVFQCSGEDMNLVLNGVLPPTSPAISPV 154
EH ++A+QL+ E F + PT+PA
Sbjct: 17 EHVLLVPTASFFIASQLQ--------------EQFNKILPEPTEGFAADDEPTTPA---- 58
Query: 155 GKTLLSPGMLPHSSQPLYPQHNTQINPGLSHLDPLV----------NVH-LTQALAQAQY 203
L+ L + S + P Q + L+ L ++H L L Q
Sbjct: 59 --ELVG-KFLGYVSSLVEPSKVGQFDQVLNLC--LTEFENCYLEGNDIHALAAKLLQEND 113
Query: 204 AKSQQDNLMLMNQIAAQQMAALNKPHNMALNGHTPTLIPAPSPNALMPPPLNSKSTTIPT 263
+ ++ N I A+ +P S +AL
Sbjct: 114 TTLVKTKELIKNYITAR--IMAKRP------------FDKKSNSAL-------------- 145
Query: 264 NLPALPAVPTS--------GG------YFPQFQ------------LPINMNTAHLLQ--- 294
AV GG YF + + L I + L +
Sbjct: 146 ----FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL-IKFSAETLSELIR 200
Query: 295 -PMNTPFFFNMPR-MPV-----TPQVLPK----------FPVHQLNQTPTVYTIP----- 332
++ F + + + P P P+ + Q
Sbjct: 201 TTLDAEKVF--TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF 258
Query: 333 TPGN---------------PVALCPLVQNIWLSLLLNTIPGYEQVLGLGGVALCLSAFGR 377
TPG A+ + W S ++ + +G C A+
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG--VRCYEAYPN 316
Query: 378 ------------RNGEAI------VRFIDQEHRDMALKRHKHHIDK-RYIEVTKANGEDF 418
N E + + + QE + + H+ + +E++ NG
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 419 INVAG 423
+ V+G
Sbjct: 377 LVVSG 381
Score = 36.6 bits (84), Expect = 0.031
Identities = 29/184 (15%), Positives = 58/184 (31%), Gaps = 65/184 (35%)
Query: 432 FLTRGAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVL---FVKKPDGKATG 488
+ + A ++ + L + T ++ + + T +S +G++ + + D +
Sbjct: 242 GVIQLAHYVVTAKLLGF--TPGELRSYLKGATGHS-------QGLVTAVAIAETD---SW 289
Query: 489 DAFVLFEKEEEADKALSKHKE---SIGIRYIELFRSTTAEVQQVLNKTMELPKNNSLTSS 545
++F KA+ IG+R + T LP + S
Sbjct: 290 ESF-----FVSVRKAI----TVLFFIGVR-----------CYEAYPNT-SLPPSILEDSL 328
Query: 546 NNGLSAQQPMLS------------------HLAQVPVPYL-----PQHIITSGTRKDCIR 582
N PMLS HL + ++++ SG +
Sbjct: 329 ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS--- 385
Query: 583 LRGL 586
L GL
Sbjct: 386 LYGL 389
Score = 30.8 bits (69), Expect = 1.6
Identities = 28/128 (21%), Positives = 46/128 (35%), Gaps = 42/128 (32%)
Query: 1 MKVPQYYCVFFVATAGLQGNLLGSDEQEI-ILLIYVIIDSYVNKVLITSQYKEPIQGFKK 59
+++P V+ GSD + + + I+D I P++ ++
Sbjct: 455 IQIP----VYDTFD--------GSDLRVLSGSISERIVD------CIIR---LPVK-WET 492
Query: 60 VLVE---HILEF-LGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNR 115
HIL+F G AS + GV N G +G I +A L N
Sbjct: 493 TTQFKATHILDFGPGG-ASGL---GVLTHRNKDG--TGVRVI---------VAGTLDINP 537
Query: 116 NMIFGKKQ 123
+ +G KQ
Sbjct: 538 DDDYGFKQ 545
>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 = 49.6 bits (119), Expect = 1e-06
Identities = 27/147 (18%), Positives = 57/147 (38%), Gaps = 19/147 (12%)
Query: 375 FGRRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFL 433
F A + +E +++ + I+ + +N + E
Sbjct: 155 FNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLE----- 209
Query: 434 TRGAQVIIRMRGLPYECTAKQVI-DFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAF 491
G +++IR L E + ++ + FE G+ N+ G +K AF
Sbjct: 210 --GREIMIR--NLSTELLDENLLRESFEGFGSIEKINIPAG-------QKEHSFNNCCAF 258
Query: 492 VLFEKEEEADKALSKHKESIGIRYIEL 518
++FE ++ A++AL ++ +G R I +
Sbjct: 259 MVFENKDSAERALQMNRSLLGNREISV 285
Score = 48.1 bits (115), Expect = 4e-06
Identities = 15/82 (18%), Positives = 27/82 (32%), Gaps = 13/82 (15%)
Query: 445 GLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP +V +F+ G +V D K A + F + + A A
Sbjct: 48 NLPKSYNQNKVYKYFKHCGPIIHVDVADSL----------KKNFRFARIEFARYDGALAA 97
Query: 504 LSKHKESIGIR--YIELFRSTT 523
++K + +G + T
Sbjct: 98 ITKTHKVVGQNEIIVSHLTECT 119
Score = 40.7 bits (96), Expect = 8e-04
Identities = 13/128 (10%), Positives = 33/128 (25%), Gaps = 32/128 (25%)
Query: 380 GEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQV 439
A + F + A+ + + + I V+ + ++T
Sbjct: 82 RFARIEFARYDGALAAITKTHKVVGQNEIIVSHL---TECTL----------WMT----- 123
Query: 440 IIRMRGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEE 498
P T + + D + + + A++ +E
Sbjct: 124 -----NFPPSYTQRNIRDLLQDINVVALS--------IRLPSLRFNTSRRFAYIDVTSKE 170
Query: 499 EADKALSK 506
+A + K
Sbjct: 171 DARYCVEK 178
Score = 30.3 bits (69), Expect = 1.5
Identities = 9/38 (23%), Positives = 19/38 (50%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
N A + F +++ + AL+ ++ + R I V+ A
Sbjct: 251 SFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLA 288
Score = 29.6 bits (67), Expect = 2.6
Identities = 10/60 (16%), Positives = 20/60 (33%), Gaps = 3/60 (5%)
Query: 63 EHILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
+I + L + V + + A+I + S+ A + + N I G
Sbjct: 132 RNIRDLLQDINV--VALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE-KLNGLKIEGYT 188
>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 = 47.2 bits (113), Expect = 2e-06
Identities = 21/150 (14%), Positives = 53/150 (35%), Gaps = 28/150 (18%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTR 435
+ A + F + A+ + +++ + + D+ + G +
Sbjct: 48 NQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPH--DYQPLPGAHK--------- 96
Query: 436 GAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVL 493
+ + GLP QV + + G + N++ D G + G AF
Sbjct: 97 -----LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSA---------TGLSKGYAFCE 142
Query: 494 FEKEEEADKALSK-HKESIGIRYIELFRST 522
+ D+A++ + +G + + + R++
Sbjct: 143 YVDINVTDQAIAGLNGMQLGDKKLLVQRAS 172
Score = 38.7 bits (91), Expect = 0.002
Identities = 13/89 (14%), Positives = 31/89 (34%), Gaps = 4/89 (4%)
Query: 445 GLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P+ T + ++DFF G + + AF+ F +E +A
Sbjct: 11 NIPFGITEEAMMDFFNAQMRLGGLTQAPGN---PVLAVQINQDKNFAFLEFRSVDETTQA 67
Query: 504 LSKHKESIGIRYIELFRSTTAEVQQVLNK 532
++ + +++ R + +K
Sbjct: 68 MAFDGIIFQGQSLKIRRPHDYQPLPGAHK 96
>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 = 45.5 bits (108), Expect = 3e-06
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GL T + DFF + G +++ K GK GDA V +E A A
Sbjct: 22 GLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAA 81
Query: 504 LS 505
+
Sbjct: 82 VE 83
Score = 30.8 bits (70), Expect = 0.37
Identities = 7/29 (24%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 81 VHMVYNSQ-GQPSGEAFIQMDSEHSAYLA 108
+H+ + + G+P G+A + + +A A
Sbjct: 53 IHIYLDKETGKPKGDATVSYEDPPTAKAA 81
>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 = 46.8 bits (112), Expect = 3e-06
Identities = 24/128 (18%), Positives = 42/128 (32%), Gaps = 29/128 (22%)
Query: 384 VRFIDQEHRDMALKR-HKHHIDK---RYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQV 439
V F ++ A H + I++ A+ E + ++
Sbjct: 52 VTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSE-------------KNNAVEDRKL 98
Query: 440 IIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEE 498
I M + +CT + F + G C ++ + PDG + G AFV F
Sbjct: 99 FIGM--ISKKCTENDIRVMFSSFGQIEECRIL---------RGPDGLSRGCAFVTFTTRA 147
Query: 499 EADKALSK 506
A A+
Sbjct: 148 MAQTAIKA 155
Score = 38.4 bits (90), Expect = 0.002
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 9/64 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+P + K + + FE G NV+ D + ++ G FV F + A +
Sbjct: 10 QVPRTWSEKDLRELFEQYGAVYEINVLRDRSQN-------PPQSKGCCFVTFYTRKAALE 62
Query: 503 ALSK 506
A +
Sbjct: 63 AQNA 66
>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 = 45.0 bits (107), Expect = 4e-06
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 10/64 (15%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L + + + V+ F+ G + C V+ + PDG + G AFV F EA
Sbjct: 21 GMLNKQQSEEDVLRLFQPFGVIDECTVL---------RGPDGSSKGCAFVKFSSHTEAQA 71
Query: 503 ALSK 506
A+
Sbjct: 72 AIHA 75
>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 = 46.9 bits (112), Expect = 4e-06
Identities = 20/153 (13%), Positives = 50/153 (32%), Gaps = 16/153 (10%)
Query: 382 AIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQVII 441
A + F + A+ + +++ + + + N + +
Sbjct: 54 AFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDS 113
Query: 442 RMR----GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFE 495
+ GLP QV + + G + N++ D G + G AF +
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSA---------TGLSKGYAFCEYV 164
Query: 496 KEEEADKALSK-HKESIGIRYIELFRSTTAEVQ 527
D+A++ + +G + + + R++
Sbjct: 165 DINVTDQAIAGLNGMQLGDKKLLVQRASVGAKN 197
Score = 38.9 bits (91), Expect = 0.002
Identities = 12/79 (15%), Positives = 28/79 (35%), Gaps = 4/79 (5%)
Query: 445 GLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P+ T + ++DFF G + + AF+ F +E +A
Sbjct: 11 NIPFGITEEAMMDFFNAQMRLGGLTQAPGNP---VLAVQINQDKNFAFLEFRSVDETTQA 67
Query: 504 LSKHKESIGIRYIELFRST 522
++ + +++ R
Sbjct: 68 MAFDGIIFQGQSLKIRRPH 86
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 43.7 bits (104), Expect = 7e-06
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP++ T K + D F E G ++ +GK+ G V FE E A++A
Sbjct: 15 NLPFDFTWKMLKDKFNECGHVLYADIK----------MENGKSKGCGVVKFESPEVAERA 64
Query: 504 LSK 506
Sbjct: 65 CRM 67
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 46.5 bits (111), Expect = 8e-06
Identities = 30/157 (19%), Positives = 61/157 (38%), Gaps = 28/157 (17%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLT 434
+ G A V + E +AL++ + + R I+V + + N +AQ +
Sbjct: 67 MKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPS----------NIGQAQPIID 116
Query: 435 RGAQVIIRMR-----GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKAT 487
+ A+ + + + + FEA G S + D GK
Sbjct: 117 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPT---------TGKHK 167
Query: 488 GDAFVLFEKEEEADKALSK-HKESIGIRYIELFRSTT 523
G F+ +EK + + A+S + +G +Y+ + ++ T
Sbjct: 168 GYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVT 204
>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 = 43.4 bits (103), Expect = 1e-05
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 1/62 (1%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GL T + V D+F + G + L+ + GK G+A V F+ A A
Sbjct: 20 GLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 79
Query: 504 LS 505
+
Sbjct: 80 ID 81
Score = 30.0 bits (68), Expect = 0.57
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 81 VHMVYNSQ-GQPSGEAFIQMDSEHSAYLA 108
+++ + + G+ GEA + D SA A
Sbjct: 51 INLYTDRETGKLKGEATVSFDDPPSAKAA 79
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 45.2 bits (107), Expect = 1e-05
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 10/67 (14%)
Query: 441 IRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+ + L + + + + F E GT V G++ G A V FE+ +
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAVD---------YDRSGRSLGTADVHFERRAD 141
Query: 500 ADKALSK 506
A KA+ +
Sbjct: 142 ALKAMKQ 148
>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 = 43.4 bits (103), Expect = 1e-05
Identities = 17/72 (23%), Positives = 30/72 (41%), Gaps = 9/72 (12%)
Query: 446 LPYECTAKQVIDFFEAGTENSCN-VMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
LPY+ T + + +FF ++ + + G + FE + AL
Sbjct: 27 LPYDVTEESIKEFFRGLNISAVRLPREPSNP--------ERLKGFGYAEFEDLDSLLSAL 78
Query: 505 SKHKESIGIRYI 516
S ++ES+G R I
Sbjct: 79 SLNEESLGNRRI 90
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 101
Score = 43.0 bits (102), Expect = 1e-05
Identities = 15/79 (18%), Positives = 26/79 (32%), Gaps = 10/79 (12%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
L + ++ E +N V+D G +V FE E+ +KA
Sbjct: 24 NLNPNKSVAELKVAISELFAKNDLAVVD---------VRTGTNRKFGYVDFESAEDLEKA 74
Query: 504 LSKHKESIGIRYIELFRST 522
L + I+L +
Sbjct: 75 LELTGLKVFGNEIKLEKPK 93
>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 = 45.8 bits (109), Expect = 2e-05
Identities = 22/125 (17%), Positives = 39/125 (31%), Gaps = 33/125 (26%)
Query: 384 VRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQVIIR 442
+R + ++A + R + + A T GA + ++
Sbjct: 63 IRLESRTLAEIAKAELDGTILKSRPLRIRFA--------------------THGAALTVK 102
Query: 443 MRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
L + + + F G V+ G+ATG FV F + A
Sbjct: 103 --NLSPVVSNELLEQAFSQFGPVEKAVVV---------VDDRGRATGKGFVEFAAKPPAR 151
Query: 502 KALSK 506
KAL +
Sbjct: 152 KALER 156
Score = 30.8 bits (70), Expect = 1.0
Identities = 11/61 (18%), Positives = 18/61 (29%), Gaps = 15/61 (24%)
Query: 445 GLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP + T + FE G + + + G F+ E A+ A
Sbjct: 29 NLPTDITEEDFKRLFERYGEPSEVFIN--------------RDRGFGFIRLESRTLAEIA 74
Query: 504 L 504
Sbjct: 75 K 75
>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 = 43.0 bits (102), Expect = 2e-05
Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 9/78 (11%)
Query: 440 IIRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEE 498
+ LPY+ T + + +FF + + G + FE +
Sbjct: 17 TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNP--------ERLKGFGYAEFEDLD 68
Query: 499 EADKALSKHKESIGIRYI 516
ALS ++ES+G + I
Sbjct: 69 SLLSALSLNEESLGNKRI 86
>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 = 43.0 bits (102), Expect = 2e-05
Identities = 10/66 (15%), Positives = 20/66 (30%), Gaps = 10/66 (15%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
G+ ++ FF G+ ++ G + G FV F + + K
Sbjct: 16 GIDVRMDETEIRSFFARYGSVKEVKII---------TDRTGVSKGYGFVSFYNDVDVQKI 66
Query: 504 LSKHKE 509
+
Sbjct: 67 VESQIN 72
>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 = 43.5 bits (103), Expect = 2e-05
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 446 LPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
L Y+ K++ + F AG +++ + DGK+ G V FE+ EA +A+
Sbjct: 23 LDYKVGWKKLKEVFSMAGVVVRADIL---------EDKDGKSRGIGTVTFEQSIEAVQAI 73
Query: 505 SK 506
S
Sbjct: 74 SM 75
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus,
phosphorylation, ribonucleoprotein, ribosome biogenesis,
RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A
Length = 111
Score = 43.3 bits (102), Expect = 2e-05
Identities = 15/67 (22%), Positives = 22/67 (32%), Gaps = 12/67 (17%)
Query: 441 IRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
I M+ LP C+ + + D E E F G + F EE
Sbjct: 31 ITMKNLPEGCSWQDLKDLARENSLE-----------TTFSSVNTRDFDGTGALEFPSEEI 79
Query: 500 ADKALSK 506
+AL +
Sbjct: 80 LVEALER 86
>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 = 43.1 bits (102), Expect = 2e-05
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 12/64 (18%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD--GKATGDAFVLFEKEEEA 500
R +P++ +++ + F G + + KK G G FV F +++A
Sbjct: 21 RNIPFQANQREIRELFSTFGELKTVRLP---------KKMTGTGAHRGFGFVDFITKQDA 71
Query: 501 DKAL 504
KA
Sbjct: 72 KKAF 75
>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 = 42.6 bits (101), Expect = 2e-05
Identities = 16/75 (21%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
G+P+ C ++ ++F+ G ++ D + G F+ FE E+ D+
Sbjct: 17 GIPHNCGETELREYFKKFGVVTEVVMIYD---------AEKQRPRGFGFITFEDEQSVDQ 67
Query: 503 ALSKHKESIGIRYIE 517
A++ H I + +E
Sbjct: 68 AVNMHFHDIMGKKVE 82
Score = 32.2 bits (74), Expect = 0.098
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
R G + F D++ D A+ H H I + +EV +A
Sbjct: 49 QRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRA 86
>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain,
RNA- binding, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 104
Score = 42.6 bits (100), Expect = 2e-05
Identities = 21/110 (19%), Positives = 41/110 (37%), Gaps = 12/110 (10%)
Query: 436 GAQVIIRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFE 495
V + +RGLP + + +FE N G VL ++ + F
Sbjct: 6 SGGVAVEVRGLPPAVPDELLTLYFE----NRRRSGGGP--VLSWQRLGCGG----VLTFR 55
Query: 496 KEEEADKALSKHKESIGIRYIELFRSTTAEVQQVLNKTMELPKNNSLTSS 545
+ +A++ L++ + + L + ++L + LP S SS
Sbjct: 56 EPADAERVLAQADHELHGAQLSLRPAPPRAPARLLLQ--GLPPGTSGPSS 103
Score = 36.1 bits (83), Expect = 0.005
Identities = 5/41 (12%), Positives = 13/41 (31%)
Query: 377 RRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGED 417
R ++ F + + L + H + + + A
Sbjct: 45 RLGCGGVLTFREPADAERVLAQADHELHGAQLSLRPAPPRA 85
>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 = 41.7 bits (99), Expect = 3e-05
Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL + +++ ++F G S + D K G F+ F++EE K
Sbjct: 6 GLSPDTPEEKIREYFGGFGEVESIELPMD---------NKTNKRRGFCFITFKEEEPVKK 56
Query: 503 ALSKHKESIGIRYIE 517
+ K ++G+ E
Sbjct: 57 IMEKKYHNVGLSKCE 71
Score = 32.5 bits (75), Expect = 0.041
Identities = 7/38 (18%), Positives = 17/38 (44%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
+R G + F ++E +++ H++ E+ A
Sbjct: 38 NKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA 75
>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 = 42.7 bits (101), Expect = 3e-05
Identities = 12/75 (16%), Positives = 24/75 (32%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCN-VMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L + + DFF G + D + ++ G A+V F + +
Sbjct: 32 QLAARIRPRDLEDFFSAVGKVRDVRIISD---------RNSRRSKGIAYVEFCEIQSVPL 82
Query: 503 ALSKHKESIGIRYIE 517
A+ + + I
Sbjct: 83 AIGLTGQRLLGVPII 97
>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 = 44.6 bits (106), Expect = 4e-05
Identities = 20/157 (12%), Positives = 45/157 (28%), Gaps = 26/157 (16%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLT 434
G+ G ++ ++ A + R + V + + L
Sbjct: 134 GQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTD-----------AGQLTPALL 182
Query: 435 RGAQVIIRMRGLPYECT-AKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFV 492
+ + LP + A + C + DG+ G A +
Sbjct: 183 HSRCLCVD--RLPPGFNDVDALCRALSAVHSPTFCQLA---------CGQDGQLKGFAVL 231
Query: 493 LFEKEEEADKALSK-HKESIGIRYIELFRSTTAEVQQ 528
+E E A++A + S+G ++ + +
Sbjct: 232 EYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPPGR 268
Score = 44.6 bits (106), Expect = 5e-05
Identities = 22/133 (16%), Positives = 45/133 (33%), Gaps = 32/133 (24%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLT 434
+ G A V ++ E + A+ H+ + +R + V
Sbjct: 54 DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQ--------------------P 93
Query: 435 RGAQVIIRMRGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVL 493
A + + LP T +Q + G+ C ++ + G++ G F
Sbjct: 94 TDALLCVA--NLPPSLTQQQFEELVRPFGSLERCFLV--------YSERTGQSKGYGFAE 143
Query: 494 FEKEEEADKALSK 506
+ K++ A +A S
Sbjct: 144 YMKKDSAARAKSD 156
Score = 34.6 bits (80), Expect = 0.072
Identities = 19/106 (17%), Positives = 33/106 (31%), Gaps = 30/106 (28%)
Query: 401 HHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFE 460
H +D I + +++IR GLP + T ++V D
Sbjct: 1 HMLDPEEIRKRLE--------------HTERQFRNRRKILIR--GLPGDVTNQEVHDLLS 44
Query: 461 AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
+ + K G AFV E+A+ A++
Sbjct: 45 DY------------ELKYCF--VDKYKGTAFVTLLNGEQAEAAINA 76
>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 = 43.7 bits (102), Expect = 5e-05
Identities = 12/79 (15%), Positives = 28/79 (35%), Gaps = 10/79 (12%)
Query: 441 IRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+ ++G P + T + ++ E G + + + G FV+F+ E
Sbjct: 112 VYIKGFPTDATLDDIKEWLEDKGQVLNIQMR---------RTLHKAFKGSIFVVFDSIES 162
Query: 500 ADKALSKHKESIGIRYIEL 518
A K + + + +
Sbjct: 163 AKKFVETPGQKYKETDLLI 181
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 40.5 bits (96), Expect = 6e-05
Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL T + V +FE G + +M D K + G FV FE E+ +K
Sbjct: 6 GLSVNTTVEDVKHYFEQFGKVDDAMLMFD---------KTTNRHRGFGFVTFESEDIVEK 56
Query: 503 ALSKHKESIGIRYIE 517
H I + +E
Sbjct: 57 VCEIHFHEINNKMVE 71
Score = 33.6 bits (78), Expect = 0.018
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
R G V F ++ + + H H I+ + +E KA
Sbjct: 38 NRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA 75
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 41.6 bits (98), Expect = 7e-05
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 1/62 (1%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GL T + V D+F + G + L+ + GK G+A V F+ A A
Sbjct: 14 GLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 73
Query: 504 LS 505
+
Sbjct: 74 ID 75
Score = 28.9 bits (65), Expect = 1.9
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 89 GQPSGEAFIQMDSEHSAYLA 108
G+ GEA + D SA A
Sbjct: 54 GKLKGEATVSFDDPPSAKAA 73
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 41.1 bits (97), Expect = 8e-05
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 444 RGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GLP+ CT +++ + GT + V GK G A+V +E E +A +
Sbjct: 23 SGLPFSCTKEELEEICKAHGTVKDLRL---------VTNRAGKPKGLAYVEYENESQASQ 73
Query: 503 ALSK 506
A+ K
Sbjct: 74 AVMK 77
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 41.2 bits (97), Expect = 8e-05
Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 11/64 (17%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEAD 501
R L ++ + + + + G V V PD + G AF F +E A
Sbjct: 21 RNLSFDSEEEALGEVLQQFGDLKYVRV---------VLHPDTEHSKGCAFAQFMTQEAAQ 71
Query: 502 KALS 505
K L+
Sbjct: 72 KCLA 75
>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 = 41.1 bits (97), Expect = 9e-05
Identities = 15/67 (22%), Positives = 28/67 (41%), Gaps = 10/67 (14%)
Query: 441 IRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+ + L + + + + F E GT V G++ G A V FE++ +
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVH---------YDRSGRSLGTADVHFERKAD 82
Query: 500 ADKALSK 506
A KA+ +
Sbjct: 83 ALKAMKQ 89
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 77
Score = 40.2 bits (95), Expect = 1e-04
Identities = 17/75 (22%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADK 502
GL ++ T + + ++F G C VM + P ++ G FV F + DK
Sbjct: 7 GLSWQTTQEGLREYFGQFGEVKECLVM---------RDPLTKRSRGFGFVTFMDQAGVDK 57
Query: 503 ALSKHKESIGIRYIE 517
L++ + + + I+
Sbjct: 58 VLAQSRHELDSKTID 72
Score = 32.5 bits (75), Expect = 0.043
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
R G V F+DQ D L + +H +D + I+ A
Sbjct: 39 KRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA 76
>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 = 40.9 bits (96), Expect = 1e-04
Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 16/84 (19%)
Query: 424 GNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKP 482
G++ + +R ++ + + GLP + + + D EAG +V
Sbjct: 1 GSSGSSGGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVY------------ 48
Query: 483 DGKATGDAFVLFEKEEEADKALSK 506
G V F ++E+ A+ K
Sbjct: 49 ---RDGTGVVEFVRKEDMTYAVRK 69
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 40.1 bits (94), Expect = 2e-04
Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 12/67 (17%)
Query: 441 IRMRGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+++R +P + + G SC + T V + +++
Sbjct: 18 LQIRNIPPHLQWEVLDSLLVQYGVVESCEQV-----------NTDSETAVVNVTYSSKDQ 66
Query: 500 ADKALSK 506
A +AL K
Sbjct: 67 ARQALDK 73
>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 = 40.4 bits (95), Expect = 2e-04
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 10/67 (14%)
Query: 441 IRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+ + L + + + + F E GT V G++ G A V FE+ +
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVD---------YDRSGRSLGTADVHFERRAD 88
Query: 500 ADKALSK 506
A KA+ +
Sbjct: 89 ALKAMKQ 95
>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 = 40.0 bits (94), Expect = 2e-04
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+P K + FE G V+ D + G G AF+ + + E A K
Sbjct: 20 QIPRNLDEKDLKPLFEEFGKIYELTVLKD---------RFTGMHKGCAFLTYCERESALK 70
Query: 503 ALS 505
A S
Sbjct: 71 AQS 73
>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 = 41.0 bits (97), Expect = 3e-04
Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 9/63 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GLP T K++ F G + ++ V + G + G F+ F+K EA++A
Sbjct: 95 GLPKTMTQKELEQLFSQYGRIITSRIL--------VDQVTGVSRGVGFIRFDKRIEAEEA 146
Query: 504 LSK 506
+
Sbjct: 147 IKG 149
Score = 35.6 bits (83), Expect = 0.018
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 9/62 (14%)
Query: 444 RGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
LP T ++ F G SC ++ K G++ G FV + ++A+K
Sbjct: 8 NYLPQNMTQEEFRSLFGSIGEIESCKLV--------RDKITGQSLGYGFVNYIDPKDAEK 59
Query: 503 AL 504
A+
Sbjct: 60 AI 61
>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 = 39.1 bits (92), Expect = 3e-04
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL ++ + K + D+F G C + D G++ G F+LF+ +K
Sbjct: 18 GLSWDTSKKDLKDYFTKFGEVVDCTIKMD---------PNTGRSRGFGFILFKDAASVEK 68
Query: 503 ALSKHKESIGIRYIE 517
L + + + R I+
Sbjct: 69 VLDQKEHRLDGRVID 83
Score = 30.6 bits (70), Expect = 0.31
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
GR G + F D + L + +H +D R I+ KA
Sbjct: 50 GRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKKA 87
>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 = 39.6 bits (93), Expect = 3e-04
Identities = 17/75 (22%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADK 502
GL ++ T + + ++F G C VM + P ++ G FV F + DK
Sbjct: 32 GLSWQTTQEGLREYFGQFGEVKECLVM---------RDPLTKRSRGFGFVTFMDQAGVDK 82
Query: 503 ALSKHKESIGIRYIE 517
L++ + + + I+
Sbjct: 83 VLAQSRHELDSKTID 97
Score = 31.1 bits (71), Expect = 0.33
Identities = 12/39 (30%), Positives = 18/39 (46%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKAN 414
R G V F+DQ D L + +H +D + I+ A
Sbjct: 64 KRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVAF 102
>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 = 40.6 bits (95), Expect = 3e-04
Identities = 20/123 (16%), Positives = 41/123 (33%), Gaps = 15/123 (12%)
Query: 388 DQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGG---NNNEAQAFLTRGAQ-VIIRM 443
D + + LK H R E + +++E + R + I+ +
Sbjct: 18 DGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFV 77
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
+ E ++ + F G + ++ D G + G A V +E ++A
Sbjct: 78 TSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTG---------FSKGYALVEYETHKQAL 128
Query: 502 KAL 504
A
Sbjct: 129 AAK 131
>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 = 39.2 bits (92), Expect = 3e-04
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 10/62 (16%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
L + + + F +AG + K +GK FV F+ E A
Sbjct: 23 NLEARVREEILYELFLQAGPLTKVTIC---------KDREGKPKSFGFVCFKHPESVSYA 73
Query: 504 LS 505
++
Sbjct: 74 IA 75
Score = 28.4 bits (64), Expect = 2.0
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 81 VHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGK 121
V + + +G+P F+ S A L + ++G+
Sbjct: 46 VTICKDREGKPKSFGFVCFKHPESVSYAIALLNGI-RLYGR 85
>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 = 39.8 bits (93), Expect = 3e-04
Identities = 17/85 (20%), Positives = 30/85 (35%), Gaps = 16/85 (18%)
Query: 423 GGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKK 481
GG +R ++ + + GLP + + + D EAG +V
Sbjct: 1 GGAPRGRYGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVY----------- 49
Query: 482 PDGKATGDAFVLFEKEEEADKALSK 506
G V F ++E+ A+ K
Sbjct: 50 ----RDGTGVVEFVRKEDMTYAVRK 70
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 39.6 bits (92), Expect = 3e-04
Identities = 19/86 (22%), Positives = 30/86 (34%), Gaps = 8/86 (9%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GLP + ++ F G E K G AF+LF++E
Sbjct: 15 GLPPDIDEDEITASFRRFGPLVVDWPHKAE------SKSYFPPKGYAFLLFQEESSVQAL 68
Query: 504 LSKHKESIGIRYIELFRSTTAEVQQV 529
+ E G Y+ + S T + + V
Sbjct: 69 IDACLEEDGKLYLCV-SSPTIKDKPV 93
>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 = 4e-04
Identities = 9/63 (14%), Positives = 21/63 (33%), Gaps = 10/63 (15%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP +++ + + G S ++ + G + G F E E+ +
Sbjct: 32 NLPLSMDEQELENMLKPFGQVISTRIL---------RDSSGTSRGVGFARMESTEKCEAV 82
Query: 504 LSK 506
+
Sbjct: 83 IGH 85
>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 = 40.2 bits (95), Expect = 5e-04
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
LP T Q+ F G+ N++ D G+ G AFV + K EEA +
Sbjct: 96 NLPRTITDDQLDTIFGKYGSIVQKNILRDKL---------TGRPRGVAFVRYNKREEAQE 146
Query: 503 ALSK 506
A+S
Sbjct: 147 AISA 150
Score = 37.2 bits (87), Expect = 0.006
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 444 RGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
LP + T +++ F G N+C +M G + G AFV F E ++ +
Sbjct: 9 NYLPQDMTDRELYALFRAIGPINTCRIM--------RDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 503 AL 504
A+
Sbjct: 61 AI 62
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 38.5 bits (90), Expect = 5e-04
Identities = 19/75 (25%), Positives = 30/75 (40%), Gaps = 14/75 (18%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
G P + Q+ ++F A G S VMD ++GV F A V +
Sbjct: 14 SGFPRGVDSAQLSEYFLAFGPVASV-VMDKDKGV-F-----------AIVEMGDVGAREA 60
Query: 503 ALSKHKESIGIRYIE 517
LS+ + S+G +
Sbjct: 61 VLSQSQHSLGGHRLR 75
Score = 31.5 bits (72), Expect = 0.15
Identities = 10/43 (23%), Positives = 18/43 (41%)
Query: 382 AIVRFIDQEHRDMALKRHKHHIDKRYIEVTKANGEDFINVAGG 424
AIV D R+ L + +H + + V ++F + A
Sbjct: 48 AIVEMGDVGAREAVLSQSQHSLGGHRLRVRPREQKEFQSPASK 90
>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 = 39.2 bits (92), Expect = 6e-04
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADK 502
GL +E T + + +++E G C VM + P ++ G FV F E D
Sbjct: 34 GLSFETTEESLRNYYEQWGKLTDCVVM---------RDPASKRSRGFGFVTFSSMAEVDA 84
Query: 503 ALSKHKESIGIRYIE 517
A++ SI R +E
Sbjct: 85 AMAARPHSIDGRVVE 99
Score = 30.7 bits (70), Expect = 0.48
Identities = 12/38 (31%), Positives = 15/38 (39%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
R G V F D A+ H ID R +E +A
Sbjct: 66 KRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRA 103
>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 = 38.4 bits (90), Expect = 6e-04
Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 11/64 (17%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
R L Y + + + F A G + + +D K G AFV F E A
Sbjct: 14 RNLSYTSSEEDLEKLFSAYGPLSELHYPIDSL---------TKKPKGFAFVTFMFPEHAV 64
Query: 502 KALS 505
KA +
Sbjct: 65 KAYA 68
>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 = 38.9 bits (91), Expect = 7e-04
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 12/62 (19%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
R LPY+ TA+++ D F G V + + G A+V++E +A
Sbjct: 14 RNLPYKITAEEMYDIFGKYGPIRQIRVGN-----------TPETRGTAYVVYEDIFDAKN 62
Query: 503 AL 504
A+
Sbjct: 63 AV 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 = 38.0 bits (89), Expect = 7e-04
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
LP+ T + F G +M D + K+ G AF+LF ++ A
Sbjct: 23 NLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTR---------KSKGVAFILFLDKDSAQN 73
Query: 503 ALS 505
Sbjct: 74 CTR 76
>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 = 38.4 bits (90), Expect = 8e-04
Identities = 18/75 (24%), Positives = 24/75 (32%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADK 502
GLPY T + +FE G V+ GK+ G FV A++
Sbjct: 24 GLPYHTTDASLRKYFEGFGDIEEAVVI---------TDRQTGKSRGYGFVTMADRAAAER 74
Query: 503 ALSKHKESIGIRYIE 517
A I R
Sbjct: 75 ACKDPNPIIDGRKAN 89
Score = 28.4 bits (64), Expect = 2.4
Identities = 9/30 (30%), Positives = 11/30 (36%)
Query: 384 VRFIDQEHRDMALKRHKHHIDKRYIEVTKA 413
V D+ + A K ID R V A
Sbjct: 64 VTMADRAAAERACKDPNPIIDGRKANVNLA 93
>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 = 41.8 bits (97), Expect = 8e-04
Identities = 47/390 (12%), Positives = 98/390 (25%), Gaps = 120/390 (30%)
Query: 294 QP-MNTPFFFN-MPRMPVTPQVLPKFPV------HQLNQTPTVYTIPTPGNPVALCPLVQ 345
QP M T + R+ QV K+ V +L Q AL L
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ--------------ALLELRP 149
Query: 346 NIWLSLLLNTIPGYEQVLGLGGVA-LCLSAFGRRNGEAIVRF--------IDQEHRDMA- 395
+ + G+ G ++ + + + + +
Sbjct: 150 AKNVL-----------IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV 198
Query: 396 ---LKRHKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQVIIRMRGLPYEC-- 450
L++ + ID + + + + + + QA L R +++ + C
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRI-----HSIQAELRR----LLKSKPYE-NCLL 248
Query: 451 -----TAKQVIDFFEAG-----TENSCNVMDGEEG-----VLFVKKPDGKATGDAFVLFE 495
+ + F T V D + + L
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 496 K---------EEEADK----ALSKHKESIGIRYIELFRSTTAEVQQVLNKTMELPKNNSL 542
K E LS I + +T + V + +
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLS----IIAESIRD-GLATWDNWKHVNCDKL----TTII 359
Query: 543 TSSNNGLSA--QQPMLSHLA----QVPVP-------------YLPQHIITSGTRKDCIRL 583
SS N L + M L+ +P ++ + +
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 584 RGLPYEALCILMDIFFV----GQQDSFVHK 609
+ P E+ + I+ + + +H+
Sbjct: 420 Q--PKESTISIPSIYLELKVKLENEYALHR 447
Score = 39.1 bits (90), Expect = 0.005
Identities = 56/450 (12%), Positives = 134/450 (29%), Gaps = 155/450 (34%)
Query: 20 NLLGSDEQEIILLIY--V----IIDSY-VN-KVLITSQYKEPIQGFKKVLVEHILEFLGE 71
LL S E LL+ V +++ ++ K+L+T+++K+ + +FL
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ------------VTDFL-- 281
Query: 72 FASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKKQRYIEVFQC 131
S + + ++S + + + K C
Sbjct: 282 --SAATTTHISLDHHSMT------LTPDEVKS--------------LLLK------YLDC 313
Query: 132 SGEDMNLVLNGVLPP----TSP-AISPVGKTLLS-PGMLPHSSQPLYPQHNTQINPGLSH 185
+D LP T+P +S + +++ + + T I L+
Sbjct: 314 RPQD--------LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 186 LDP---------LV----NVHLT-QALAQAQYAKSQQDNLMLMNQIAAQQMAALNKP--- 228
L+P L + H+ L+ + + D ++++N++ +
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Query: 229 ---HNMALNGHTP---------TLI------PAPSPNALMPPPLNSKSTTIPTNLPALPA 270
++ L +++ + L+PP L+
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD--------------- 470
Query: 271 VPTSGGYFPQFQLPINMNTAHLLQPMN--TPFFFNMPRMPVTPQVLPKFPVHQLNQTPTV 328
YF + ++ + M F + +F ++ T
Sbjct: 471 -----QYFYSH-IGHHLKNIEHPERMTLFRMVFLDF-----------RFLEQKIRHDSTA 513
Query: 329 YTIPTPGNPVALCPLVQNI--WLSLLLNTIPGYEQVLGLGGVALCLSAFGRRNGEAIVRF 386
+ + +Q + + + + P YE+++ + F + E ++
Sbjct: 514 WNASGS-----ILNTLQQLKFYKPYICDNDPKYERLVNA------ILDFLPKIEENLIC- 561
Query: 387 IDQEHRDM---ALKRHKHHIDKRYIEVTKA 413
++ D+ AL I + E K
Sbjct: 562 --SKYTDLLRIALMAEDEAI---FEEAHKQ 586
Score = 36.0 bits (82), Expect = 0.045
Identities = 39/224 (17%), Positives = 61/224 (27%), Gaps = 84/224 (37%)
Query: 399 HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDF 458
H HH+D E E Q Y+ K ++
Sbjct: 3 HHHHMD---FET----------------GEHQ-----------------YQY--KDILSV 24
Query: 459 FEAGTENSCNVMDGEEGVLFVKKPDGKATGDAF--VLFEKEEEADKAL-SKHKESIGIRY 515
FE FV D K D +L +EE D + SK S +R
Sbjct: 25 FEDA---------------FVDNFDCKDVQDMPKSIL--SKEEIDHIIMSKDAVSGTLRL 67
Query: 516 IELFRSTTAE-VQQVLNKTMELPKN-----NSLTSSNNGLSAQQPM----LSHLAQVPVP 565
S E VQ+ + + + N + + + S M L
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLR--INYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 566 YLPQHIITSGTRKDCI-RLRGLPYEALCILMDIFFVGQQDSFVH 608
+ ++ +R +LR +AL L V +
Sbjct: 126 FAKYNV----SRLQPYLKLR----QALLELRPAKNV-----LID 156
>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 = 38.0 bits (89), Expect = 8e-04
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 13/64 (20%)
Query: 444 RGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L Y T + + + FE A + + +GK+ G AF+ F E+A +
Sbjct: 21 SNLSYSATEETLQEVFEKATF------------IKVPQNQNGKSKGYAFIEFASFEDAKE 68
Query: 503 ALSK 506
AL+
Sbjct: 69 ALNS 72
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 38.0 bits (89), Expect = 9e-04
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 10/73 (13%)
Query: 445 GLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADKA 503
LP+ + F+ ++ V V+ D K G +V F++ + +A
Sbjct: 22 NLPFNTVQGDIDAIFK-----DLSIRS----VRLVRDKDTDKFKGFCYVEFDEVDSLKEA 72
Query: 504 LSKHKESIGIRYI 516
L+ +G R +
Sbjct: 73 LTYDGALLGDRSL 85
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 38.1 bits (89), Expect = 0.001
Identities = 10/67 (14%), Positives = 17/67 (25%), Gaps = 9/67 (13%)
Query: 441 IRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEE 499
+ L + D G ++ + K G A VLF
Sbjct: 9 VTFARLNDNVRETFLKDMCRKYGEVEEVEIL--------LHPRTRKHLGLARVLFTSTRG 60
Query: 500 ADKALSK 506
A + +
Sbjct: 61 AKETVKN 67
>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 = 37.6 bits (88), Expect = 0.001
Identities = 15/75 (20%), Positives = 27/75 (36%), Gaps = 11/75 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADK 502
GL + T + + +F G C +M K ++ G FV F+
Sbjct: 23 GLDWSTTQETLRSYFSQYGEVVDCVIM---------KDKTTNQSRGFGFVKFKDPNCVGT 73
Query: 503 ALSKHKESIGIRYIE 517
L+ ++ R I+
Sbjct: 74 VLASRPHTLDGRNID 88
Score = 29.5 bits (67), Expect = 0.91
Identities = 9/39 (23%), Positives = 13/39 (33%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKAN 414
+ G V+F D L H +D R I+
Sbjct: 55 NQSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDPKPCT 93
>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 = 37.6 bits (88), Expect = 0.001
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 12/67 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPD-GKATGDAFVLFEKEEEADK 502
GLP++ T + + ++F G V K G + G FV F + E K
Sbjct: 22 GLPWKTTEQDLKEYFSTFGEVLMVQVK---------KDLKTGHSKGFGFVRFTEYETQVK 72
Query: 503 ALS-KHK 508
+S +H
Sbjct: 73 VMSQRHM 79
Score = 30.3 bits (69), Expect = 0.54
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKRHKHHIDKRYIEVTKAN 414
G G VRF + E + + + +H ID R+ + N
Sbjct: 54 GHSKGFGFVRFTEYETQVKVMSQ-RHMIDGRWCDCKLPN 91
>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 = 37.4 bits (87), Expect = 0.001
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 4/62 (6%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P+ T + ++DFF G + + AF+ F +E +A
Sbjct: 13 NIPFGITEEAMMDFFNAQMRLGGLTQAPGNP---VLAVQINQDKNFAFLEFRSVDETTQA 69
Query: 504 LS 505
++
Sbjct: 70 MA 71
>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 = 37.7 bits (88), Expect = 0.001
Identities = 14/61 (22%), Positives = 21/61 (34%), Gaps = 12/61 (19%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP + K + D F G ++ K AFV FE +A+ A
Sbjct: 29 NLPPDIRTKDIEDVFYKYGAIRDIDL-----------KNRRGGPPFAFVEFEDPRDAEDA 77
Query: 504 L 504
+
Sbjct: 78 V 78
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 37.7 bits (88), Expect = 0.001
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 17/64 (26%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
R P + ++ + F G +++G F AFV FE+ E A K
Sbjct: 37 RPFPLDVQESELNEIFGPFGPMKEVKILNG-----F-----------AFVEFEEAESAAK 80
Query: 503 ALSK 506
A+ +
Sbjct: 81 AIEE 84
>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 = 37.2 bits (87), Expect = 0.001
Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 17/60 (28%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP E T +++ FE G C+++ + FV E + A+ A
Sbjct: 15 NLPREATEQEIRSLFEQYGKVLECDIIKN-----Y-----------GFVHIEDKTAAEDA 58
>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 = 38.2 bits (89), Expect = 0.001
Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 9/74 (12%)
Query: 444 RGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+ Y TA+ + F G+ N ++ K G G A++ F + D
Sbjct: 42 GNVDYGSTAQDLEAHFSSCGSINRITIL--------CDKFSGHPKGYAYIEFAERNSVDA 93
Query: 503 ALSKHKESIGIRYI 516
A++ + R I
Sbjct: 94 AVAMDETVFRGRTI 107
Score = 28.1 bits (63), Expect = 4.2
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 81 VHMVYNSQ-GQPSGEAFIQMDSEHSAYLAAQL 111
+ ++ + G P G A+I+ +S A +
Sbjct: 66 ITILCDKFSGHPKGYAYIEFAERNSVDAAVAM 97
>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 = 36.8 bits (86), Expect = 0.002
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 17/60 (28%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+ CT++++ FE G C+V+ + AFV EKE +A A
Sbjct: 16 NVSAACTSQELRSLFERRGRVIECDVVKD-----Y-----------AFVHMEKEADAKAA 59
>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 = 38.3 bits (90), Expect = 0.002
Identities = 20/143 (13%), Positives = 48/143 (33%), Gaps = 26/143 (18%)
Query: 367 GVALCLSAFGRRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGN 425
+ + + + A V + ++AL+ + I+ +++ A +
Sbjct: 29 NIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQQSSSDDTF 88
Query: 426 NNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPD 483
N + + L + + + F+ + S +VM D +
Sbjct: 89 N--------------LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQ---------T 125
Query: 484 GKATGDAFVLFEKEEEADKALSK 506
G + G FV F +++A A+
Sbjct: 126 GSSRGYGFVSFTSQDDAQNAMDS 148
Score = 29.8 bits (68), Expect = 1.4
Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 79 QGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKKQR 124
+ ++ + + AF++ H A +A Q N I +
Sbjct: 28 ANIKIMIDKNNKNVNYAFVEYHQSHDANIALQT-LNGKQIENNIVK 72
>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 = 36.8 bits (86), Expect = 0.002
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 14/68 (20%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKAT----GDAFVLFEKEE 498
+ L + T + + F G SC + KK + G FV ++K E
Sbjct: 11 KNLNFSTTEETLKGVFSKVGAIKSCTIS---------KKKNKAGVLLSMGFGFVEYKKPE 61
Query: 499 EADKALSK 506
+A KAL +
Sbjct: 62 QAQKALKQ 69
>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 = 36.8 bits (86), Expect = 0.002
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 17/64 (26%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+ CT +++ FE G C+++ + AFV E+ E+A +
Sbjct: 16 GNISPTCTNQELRAKFEEYGPVIECDIVKD-----Y-----------AFVHMERAEDAVE 59
Query: 503 ALSK 506
A+
Sbjct: 60 AIRG 63
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural
genomics, joint center for struc genomics, JCSG, protein
structure initiative; HET: PGE; 1.95A {Homo sapiens}
PDB: 3b4d_A 3b4m_A
Length = 89
Score = 36.3 bits (85), Expect = 0.002
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 11/62 (17%)
Query: 446 LPYECTAKQVIDFF-EAGTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+ Y TA+++ F G+ N ++ D K G G A++ F +E +
Sbjct: 14 VDYGATAEELEAHFHGCGSVNRVTILCD---------KFSGHPKGFAYIEFSDKESVRTS 64
Query: 504 LS 505
L+
Sbjct: 65 LA 66
>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 = 0.004
Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCN-VMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+PYE T +Q+ D F E G S V D E G K G F ++ +E A
Sbjct: 15 NIPYEATEEQLKDIFSEVGPVVSFRLVYDRETG---------KPKGYGFCEYQDQETALS 65
Query: 503 ALS 505
A+
Sbjct: 66 AMR 68
>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 = 36.5 bits (85), Expect = 0.004
Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 10/62 (16%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GL E K + F G + ++ K K+ G AF+ FE +A A
Sbjct: 14 GLNRETNEKMLKAVFGKHGPISEVLLI---------KDRTSKSRGFAFITFENPADAKNA 64
Query: 504 LS 505
Sbjct: 65 AK 66
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA
splicing, mRNA transport, nonsense-mediated mRNA decay,
nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*
Length = 126
Score = 36.6 bits (85), Expect = 0.005
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
G+ E T + + D F E G + ++ D G ++K G V +E +EA
Sbjct: 29 GVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTG--YLK-------GYTLVEYETYKEAQA 79
Query: 503 ALS 505
A+
Sbjct: 80 AME 82
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 39.0 bits (90), Expect = 0.005
Identities = 31/217 (14%), Positives = 57/217 (26%), Gaps = 23/217 (10%)
Query: 166 HSSQPLYPQHNTQINPGLSHLDPLVNVHLTQALAQAQYAKSQQDNLMLMNQIAAQQMAAL 225
H + +YPQ Q + L Q A A + Q + Q L
Sbjct: 3 HHKKRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFL 62
Query: 226 NKPHNMALNGHTPTLIPAPSPNALMPPPLNSKSTTIPTNLPALPAVPTSGGYFPQFQLPI 285
P L+ + + L PL + + +P P P
Sbjct: 63 T-PAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAY 121
Query: 286 NMNTAHLLQPM-------------NTPFFFNMPRMPVTPQVLPKFPVHQLNQ-------- 324
+A + Q M P +P P V+P + ++
Sbjct: 122 GQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDY 181
Query: 325 -TPTVYTIPTPGNPVALCPLVQNIWLSLLLNTIPGYE 360
T+ +P + + L + + + +
Sbjct: 182 IRSTLNAVPKNSSLLKKSKLPFGLVIRPYQHLYDDID 218
Score = 30.6 bits (68), Expect = 1.9
Identities = 26/180 (14%), Positives = 45/180 (25%), Gaps = 13/180 (7%)
Query: 141 NGVLPPTSPAISPVGKTLLSPGMLPHSSQPLYPQHNTQINPGLSHLDPLVNVHLTQALAQ 200
+ P A + GM P + P Q P L ++ T
Sbjct: 28 QFMPPQDPAAAGM---SYGQMGMPPQGAVPSMGQQQFL-TPAQEQLHQQIDQATTSMNDM 83
Query: 201 AQYAKSQQDNLMLMNQIAAQQMAALNKPHNMALNGHTPTLIPAPSPNALMPPPLNSKSTT 260
+ D M QM + + P+A M + +
Sbjct: 84 HLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAP-----AYGQPSAAMGQNMRPMNQL 138
Query: 261 IPTNLPALPAVPTSGGYFPQFQLPINMNTAHLLQPMNTP----FFFNMPRMPVTPQVLPK 316
P +L P + P L I + ++ + +P +L K
Sbjct: 139 YPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDYIRSTLNAVPKNSSLLKK 198
>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wi6_A
Length = 88
Score = 35.5 bits (82), Expect = 0.005
Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 14/63 (22%)
Query: 444 RGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+ LP + ++V D + C V + AFV E+A A
Sbjct: 11 KNLPQDSNCQEVHDLLKDYDLKYCYV--------------DRNKRTAFVTLLNGEQAQNA 56
Query: 504 LSK 506
+
Sbjct: 57 IQM 59
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein
complex, EXON junct complex, signaling protein; 1.85A
{Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B*
2j0s_D* 2xb2_D*
Length = 110
Score = 36.1 bits (84), Expect = 0.006
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 11/62 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCN-VMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+ E ++ + F + G + + +D G + G A V +E ++A
Sbjct: 33 SIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTG---------FSKGYALVEYETHKQALA 83
Query: 503 AL 504
A
Sbjct: 84 AK 85
>1x4e_A RNA binding motif, single-stranded interacting protein 2;
structural genomics, RRM domain, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 85
Score = 35.2 bits (82), Expect = 0.007
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 9/63 (14%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
RGL T + ++ + G S + + K K G FV F+ A K
Sbjct: 11 RGLQPGTTDQDLVKLCQPYGKIVSTKAI--------LDKTTNKCKGYGFVDFDSPSAAQK 62
Query: 503 ALS 505
A++
Sbjct: 63 AVT 65
>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 = 0.007
Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 12/76 (15%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL ++ + + F G + V+ D E ++ G FV FE ++A
Sbjct: 19 GLSFDTNEQSLEQVFSKYGQISEVVVVKDRE---------TQRSRGFGFVTFENIDDAKD 69
Query: 503 ALSK-HKESIGIRYIE 517
A+ + +S+ R I
Sbjct: 70 AMMAMNGKSVDGRQIR 85
>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 = 35.3 bits (82), Expect = 0.008
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 11/62 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+PY+ T +Q++D G + +M D + G ++ G AF+ F E +
Sbjct: 9 SIPYDQTEEQILDLCSNVGPVINLKMMFDPQTG---------RSKGYAFIEFRDLESSAS 59
Query: 503 AL 504
A+
Sbjct: 60 AV 61
>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 = 37.0 bits (85), Expect = 0.010
Identities = 18/152 (11%), Positives = 44/152 (28%), Gaps = 31/152 (20%)
Query: 378 RNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFI----------------- 419
+ G A+V D D A+ + + + + + V + +
Sbjct: 41 KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDF 100
Query: 420 ----NVAGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEE 474
N +A + ++ P E T + + E G + +V
Sbjct: 101 SESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVK---- 156
Query: 475 GVLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
V + + + ++ + +A + L
Sbjct: 157 ----VFSGKSERSSSGLLEWDSKSDALETLGF 184
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo
sapiens} SCOP: d.58.7.1
Length = 106
Score = 35.3 bits (82), Expect = 0.010
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCN-VMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
G+ E T + + D F E G + + +D G ++K G V +E +EA
Sbjct: 30 GVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTG--YLK-------GYTLVEYETYKEAQA 80
Query: 503 ALS 505
A+
Sbjct: 81 AME 83
>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 = 34.9 bits (81), Expect = 0.012
Identities = 18/63 (28%), Positives = 23/63 (36%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL E K + F G + +D E K G AFV FE E+A
Sbjct: 19 GLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE---------KHRGFAFVEFELAEDAAA 69
Query: 503 ALS 505
A+
Sbjct: 70 AID 72
>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 = 34.9 bits (81), Expect = 0.012
Identities = 12/65 (18%), Positives = 18/65 (27%), Gaps = 11/65 (16%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
L Y + + FE G + + G AFV F +A
Sbjct: 19 DNLTYRTSPDSLRRVFEKYGRVGDVYIPREPH---------TKAPRGFAFVRFHDRRDAQ 69
Query: 502 KALSK 506
A +
Sbjct: 70 DAEAA 74
>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 = 34.4 bits (80), Expect = 0.012
Identities = 18/63 (28%), Positives = 22/63 (34%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL E K + F G + D E K G AFV FE E+A
Sbjct: 14 GLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE---------KHRGFAFVEFELAEDAAA 64
Query: 503 ALS 505
A+
Sbjct: 65 AID 67
>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 = 35.2 bits (81), Expect = 0.012
Identities = 16/77 (20%), Positives = 27/77 (35%), Gaps = 8/77 (10%)
Query: 444 RGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
G+P +++++ TE +V+ V K G AFV +E A A
Sbjct: 14 GGIPKMKKREEILEEIAKVTEGVLDVI-----VYASAADKMKNRGFAFVEYESHRAAAMA 68
Query: 504 ---LSKHKESIGIRYIE 517
L + + I
Sbjct: 69 RRKLMPGRIQLWGHQIA 85
>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 = 34.9 bits (81), Expect = 0.012
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 11/62 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
L +++ F GT S VM G++ G FV F EEA KA
Sbjct: 22 NLDDGIDDERLRKAFSPFGTITSAKVM----------MEGGRSKGFGFVCFSSPEEATKA 71
Query: 504 LS 505
++
Sbjct: 72 VT 73
>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 = 34.4 bits (80), Expect = 0.013
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 10/63 (15%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L T +++ F G ++ ++ + G A+V FE +EA+K
Sbjct: 11 RLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHP--------HLSKGYAYVEFENPDEAEK 62
Query: 503 ALS 505
AL
Sbjct: 63 ALK 65
>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 = 34.9 bits (81), Expect = 0.016
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 13/65 (20%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
+ L K + D F A G SC V+ D + + G FV FE +E A+
Sbjct: 11 KNLDKSIDNKALYDTFSAFGNILSCKVVCD-----------ENGSKGYGFVHFETQEAAE 59
Query: 502 KALSK 506
+A+ K
Sbjct: 60 RAIEK 64
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 34.8 bits (80), Expect = 0.016
Identities = 17/68 (25%), Positives = 26/68 (38%), Gaps = 15/68 (22%)
Query: 440 IIRMRGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEE 498
+I + LP A ++ + F G+ + V P+G T A V F +
Sbjct: 12 VILAKNLPAGTLAAEIQETFSRFGS------------LGRVLLPEGGIT--AIVEFLEPL 57
Query: 499 EADKALSK 506
EA KA
Sbjct: 58 EARKAFRH 65
>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 = 0.016
Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L + + + F+ + S +VM D + G + G FV F +++A
Sbjct: 8 DLNVNVDDETLRNAFKDFPSYLSGHVMWDMQ---------TGSSRGYGFVSFTSQDDAQN 58
Query: 503 ALS 505
A+
Sbjct: 59 AMD 61
>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 = 34.5 bits (80), Expect = 0.016
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L + T + FE G ++ + D + G ++ G F+ F E A +
Sbjct: 12 SLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTG---------RSKGYGFITFSDSECARR 62
Query: 503 ALS 505
AL
Sbjct: 63 ALE 65
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein;
NMR {Homo sapiens}
Length = 101
Score = 34.6 bits (80), Expect = 0.017
Identities = 13/66 (19%), Positives = 20/66 (30%), Gaps = 18/66 (27%)
Query: 443 MR----GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKE 497
M+ L ++ F G + + G F AFV FE
Sbjct: 1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPG--F-----------AFVEFEDP 47
Query: 498 EEADKA 503
+A+ A
Sbjct: 48 RDAEDA 53
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 35.1 bits (81), Expect = 0.018
Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 11/68 (16%)
Query: 441 IRMRGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEE 498
+++ L Y + + FE G + D ++ G AFV F +
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRY---------TKESRGFAFVRFHDKR 100
Query: 499 EADKALSK 506
+A+ A+
Sbjct: 101 DAEDAMDA 108
>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 = 34.1 bits (79), Expect = 0.021
Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 11/68 (16%)
Query: 441 IRMRGLPYECTAKQVIDFFEA-GTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEE 498
IR+ L + + + F G+ + + D K G++ G AF+ F + E
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKD---------KTTGQSKGFAFISFHRRE 68
Query: 499 EADKALSK 506
+A +A++
Sbjct: 69 DAARAIAG 76
>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 = 33.7 bits (78), Expect = 0.024
Identities = 14/64 (21%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL T + + + F G +++ D + ++ G AFV FE ++A +
Sbjct: 22 GLSLYTTERDLREVFSKYGPIADVSIVYDQQ---------SRRSRGFAFVYFENVDDAKE 72
Query: 503 ALSK 506
A +
Sbjct: 73 AKER 76
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 33.8 bits (78), Expect = 0.031
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P+ + F G ++ E G + G FV FE +AD+A
Sbjct: 36 NIPFRFRDPDLRQMFGQFGKILDVEIIFNERG----------SKGFGFVTFENSADADRA 85
Query: 504 LSK 506
K
Sbjct: 86 REK 88
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 34.4 bits (79), Expect = 0.035
Identities = 21/89 (23%), Positives = 33/89 (37%), Gaps = 11/89 (12%)
Query: 419 INVAGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFF-EAGTENSCNVM-DGEEGV 476
+V GG+ + + + ++ + GL E K + F G + D E
Sbjct: 44 RHVDGGSGGSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE- 102
Query: 477 LFVKKPDGKATGDAFVLFEKEEEADKALS 505
K G AFV FE E+A A+
Sbjct: 103 --------KHRGFAFVEFELAEDAAAAID 123
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing
factor, RNA protein complex, SMN, binding protein-RNA
complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A
Length = 129
Score = 33.9 bits (78), Expect = 0.038
Identities = 18/110 (16%), Positives = 35/110 (31%), Gaps = 11/110 (10%)
Query: 399 HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDF 458
H HH + G + + + GL T + + +
Sbjct: 7 HHHHSSGLVPRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREV 66
Query: 459 FEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
F G +++ D + ++ G AFV FE ++A +A +
Sbjct: 67 FSKYGPIADVSIVYDQQ---------SRRSRGFAFVYFENVDDAKEAKER 107
>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 = 33.4 bits (77), Expect = 0.038
Identities = 18/64 (28%), Positives = 25/64 (39%), Gaps = 11/64 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L + T + FE G S + MD E G ++ G F+ F E A K
Sbjct: 33 SLHFNITEDMLRGIFEPFGRIESIQLMMDSETG---------RSKGYGFITFSDSECAKK 83
Query: 503 ALSK 506
AL +
Sbjct: 84 ALEQ 87
>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 = 33.0 bits (76), Expect = 0.039
Identities = 9/64 (14%), Positives = 17/64 (26%), Gaps = 14/64 (21%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+ T ++ +FF G + AFV F ++ A
Sbjct: 12 RCTGDMTEDELREFFSQYGDVMDVFIP-------------KPFRAFAFVTFADDQIAQSL 58
Query: 504 LSKH 507
+
Sbjct: 59 CGED 62
>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 = 33.4 bits (77), Expect = 0.043
Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P+ + F G ++ E G K G FV FE +AD+A
Sbjct: 22 NIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--------SK--GFGFVTFENSADADRA 71
Query: 504 LSK 506
K
Sbjct: 72 REK 74
>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 = 33.4 bits (77), Expect = 0.044
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 11/62 (17%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
GL + + + + F +AG + ++ D G + G FV F EE+AD
Sbjct: 22 GLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTG---------QHQGYGFVEFLSEEDADY 72
Query: 503 AL 504
A+
Sbjct: 73 AI 74
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 33.1 bits (76), Expect = 0.047
Identities = 10/68 (14%), Positives = 18/68 (26%), Gaps = 13/68 (19%)
Query: 441 IRMRGLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGD----AFVLFEK 496
I +R + ++ V ++ K T AFV
Sbjct: 12 IILRNIAPHTVVDSIMTALSP---------YASLAVNNIRLIKDKQTQQNRGFAFVQLSS 62
Query: 497 EEEADKAL 504
+A + L
Sbjct: 63 AMDASQLL 70
>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 = 0.049
Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 12/65 (18%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCN--VMDGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
L E K + D F A G + D + G + G AF+ F + +D
Sbjct: 12 NLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTG---------NSKGYAFINFASFDASD 62
Query: 502 KALSK 506
A+
Sbjct: 63 AAIEA 67
>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 = 34.6 bits (80), Expect = 0.051
Identities = 29/133 (21%), Positives = 48/133 (36%), Gaps = 26/133 (19%)
Query: 376 GRRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLT 434
R G A V F + AL + I + + + + + + +G N
Sbjct: 54 RRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN-------- 105
Query: 435 RGAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVL 493
I ++ L K + D F A G SC V+ + + G FV
Sbjct: 106 ------IFIKNLDKSIDNKALYDTFSAFGNILSCKVV----------CDENGSKGYGFVH 149
Query: 494 FEKEEEADKALSK 506
FE +E A++A+ K
Sbjct: 150 FETQEAAERAIEK 162
>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 = 34.0 bits (78), Expect = 0.051
Identities = 13/64 (20%), Positives = 22/64 (34%), Gaps = 11/64 (17%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEAD 501
L Y + + FE G + D ++ G AFV F + +A+
Sbjct: 76 DNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK---------ESRGFAFVRFHDKRDAE 126
Query: 502 KALS 505
A+
Sbjct: 127 DAMD 130
>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 = 34.0 bits (78), Expect = 0.058
Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 11/86 (12%)
Query: 422 AGGNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVK 480
G+N E + L + + + L + T +Q+ + F ++G + +
Sbjct: 25 FRGDNEEQEKLLKKSCTLYVG--NLSFYTTEEQIYELFSKSGDIKKIIMG--------LD 74
Query: 481 KPDGKATGDAFVLFEKEEEADKALSK 506
K A G FV + +A+ A+
Sbjct: 75 KMKKTACGFCFVEYYSRADAENAMRY 100
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 96
Score = 32.6 bits (75), Expect = 0.063
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 14/62 (22%)
Query: 444 RGLPYECTAKQVIDFFE-AGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+ L + T ++ + FE A + V + DGK+ G A++ F+ E +A+K
Sbjct: 22 KNLSFNITEDELKEVFEDALE------------IRLVSQ-DGKSKGIAYIEFKSEADAEK 68
Query: 503 AL 504
L
Sbjct: 69 NL 70
>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 = 33.7 bits (77), Expect = 0.069
Identities = 20/129 (15%), Positives = 38/129 (29%), Gaps = 17/129 (13%)
Query: 379 NGEAIVRFIDQEHRDMALKRH--KHHIDKRYIEVTKANGEDFINVAGGNNNEAQAFLTRG 436
GE +D + K++ + +D + A + +++ +
Sbjct: 13 KGETTTEAVDAATAEKVFKQYANDNGVDGEWTYD-DATKTFTVTEGSHHHHHHMHRDSCP 71
Query: 437 AQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFE 495
+ + L ++ F G S V G F AFV FE
Sbjct: 72 LDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPG--F-----------AFVEFE 118
Query: 496 KEEEADKAL 504
+A A+
Sbjct: 119 DPRDAADAV 127
>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 = 32.2 bits (74), Expect = 0.083
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 15/63 (23%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
L TA + F + G+ +G AFV + + A +A
Sbjct: 15 NLSPAVTADDLRQLFGDRKL-----PLAGQVL---------LKSGYAFVDYPDQNWAIRA 60
Query: 504 LSK 506
+
Sbjct: 61 IET 63
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 32.0 bits (73), Expect = 0.10
Identities = 15/74 (20%), Positives = 21/74 (28%), Gaps = 15/74 (20%)
Query: 440 IIRMRGLPY------ECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGDAFV 492
I + G P K + F +AG + E GK G FV
Sbjct: 8 YIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEA--------TGKTKGFLFV 59
Query: 493 LFEKEEEADKALSK 506
+A K +
Sbjct: 60 ECGSMNDAKKIIKS 73
>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 = 32.6 bits (75), Expect = 0.10
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 9/62 (14%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
+ L T + ++ F + + + G+ G AF+ F +E A +
Sbjct: 31 KNLSPRVTERDLVSLFARFQEKKGPPIQ--------FRMMTGRMRGQAFITFPNKEIAWQ 82
Query: 503 AL 504
AL
Sbjct: 83 AL 84
>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 = 32.3 bits (74), Expect = 0.11
Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 9/61 (14%)
Query: 446 LPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
LP E + ++ F G S V + K + FV ++ A A+
Sbjct: 33 LPQEFGDQDLLQMFMPFGNVVSAKVF--------IDKQTNLSKCFGFVSYDNPVSAQAAI 84
Query: 505 S 505
Sbjct: 85 Q 85
>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 = 31.8 bits (73), Expect = 0.11
Identities = 10/64 (15%), Positives = 18/64 (28%), Gaps = 14/64 (21%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+ TA+++ FF G + AFV F ++ A
Sbjct: 18 RCTEDMTAEELQQFFCQYGEVVDVFIP-------------KPFRAFAFVTFADDKVAQSL 64
Query: 504 LSKH 507
+
Sbjct: 65 CGED 68
>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 = 31.9 bits (73), Expect = 0.14
Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 17/64 (26%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
R L T + + F G + + AF+ F++ + A K
Sbjct: 17 RNLANTVTEEILEKAFSQFGKLERVKKLKD-----Y-----------AFIHFDERDGAVK 60
Query: 503 ALSK 506
A+ +
Sbjct: 61 AMEE 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 = 32.5 bits (74), Expect = 0.16
Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 4/62 (6%)
Query: 446 LPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
L K + F +S +G+ G AF+ E+ A KAL
Sbjct: 53 LAKHVQEKDLKYIFGRYVDFSSETQRIM---FDIRLMKEGRMKGQAFIGLPNEKAAAKAL 109
Query: 505 SK 506
+
Sbjct: 110 KE 111
Score = 27.9 bits (62), Expect = 6.0
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 65 ILEFLGEFASNIVYQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGK 121
I +F+S + +G+ G+AFI + +E +A A + + ++FGK
Sbjct: 65 IFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGY-VLFGK 120
>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 = 31.5 bits (72), Expect = 0.16
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 10/61 (16%)
Query: 445 GLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
GL + T + + + F+ G+ + V D E G + G FV F EE+A A
Sbjct: 22 GLSEDTTEETLKESFD-GSVRARIVTDRE---------TGSSKGFGFVDFNSEEDAKAAK 71
Query: 505 S 505
Sbjct: 72 E 72
>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 = 31.5 bits (72), Expect = 0.19
Identities = 13/62 (20%), Positives = 19/62 (30%), Gaps = 15/62 (24%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
LP + T +++ FE G V K G F+ E A+ A
Sbjct: 22 NLPPDITEEEMRKLFEKYGK------------AGEVFIHKDK--GFGFIRLETRTLAEIA 67
Query: 504 LS 505
Sbjct: 68 KV 69
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 31.5 bits (72), Expect = 0.20
Identities = 13/61 (21%), Positives = 20/61 (32%), Gaps = 11/61 (18%)
Query: 446 LPYECTAKQVIDFFEA--GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
L + + +FF + V+ G + G FV F E E +A
Sbjct: 17 LTPDVDDGMLYEFFVKVYPSCRGGKVV---------LDQTGVSKGYGFVKFTDELEQKRA 67
Query: 504 L 504
L
Sbjct: 68 L 68
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 31.6 bits (72), Expect = 0.20
Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 9/61 (14%)
Query: 446 LPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
LP E T + F G S V + K + FV F+ + A A+
Sbjct: 48 LPQEFTDTDLASTFLPFGNVISAKVF--------IDKQTSLSKCFGFVSFDNPDSAQVAI 99
Query: 505 S 505
Sbjct: 100 K 100
>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 = 31.1 bits (71), Expect = 0.22
Identities = 12/62 (19%), Positives = 18/62 (29%), Gaps = 15/62 (24%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
R L + + + F V K AFV F E+A +
Sbjct: 21 RNLMLSTSEEMIEKEFNNIKPGAVERVK--------------KIRDYAFVHFSNREDAVE 66
Query: 503 AL 504
A+
Sbjct: 67 AM 68
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 97
Score = 31.0 bits (70), Expect = 0.25
Identities = 9/61 (14%), Positives = 18/61 (29%), Gaps = 12/61 (19%)
Query: 445 GLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
LP + + E G + ++ AF+ + A +A+
Sbjct: 26 NLPRDARVSDLKRAL------------RELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAV 73
Query: 505 S 505
S
Sbjct: 74 S 74
>2q9o_A Laccase-1; multicopper oxidase, 2-OXOH oxidoreductase; HET: OHI NAG
MAN GOL; 1.30A {Melanocarpus albomyces} SCOP: b.6.1.3
b.6.1.3 b.6.1.3 PDB: 3fu7_A* 3fu8_A* 3fu7_B* 1gw0_A*
2ih9_A* 2ih8_A* 3fu9_A* 3qpk_A* 3dkh_A* 3pps_A*
Length = 559
Score = 33.1 bits (76), Expect = 0.27
Identities = 9/102 (8%), Positives = 24/102 (23%), Gaps = 2/102 (1%)
Query: 234 NGHTPTLIPAPSPNALMPPPLNSKSTTIPTNLPALPAVPTSGGYFPQFQLPINMNTAHLL 293
G L + L++ P ++P + +++ L
Sbjct: 313 AGAPGGLPTDEGTPPVDHQCLDTLDVR-PVVPRSVPVNSFVKRPDNTLPVALDLTGTPLF 371
Query: 294 QPMNTPFFFNMP-RMPVTPQVLPKFPVHQLNQTPTVYTIPTP 334
N+ P+ +L + ++
Sbjct: 372 VWKVNGSDINVDWGKPIIDYILTGNTSYPVSDNIVQVDAVDQ 413
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 31.8 bits (72), Expect = 0.32
Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 5/62 (8%)
Query: 445 GLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
+ T +Q+I S V D E + +G++ G A V+ E K L
Sbjct: 62 SFSWWTTDQQLIQVIR-----SIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLL 116
Query: 505 SK 506
Sbjct: 117 EL 118
>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 = 30.6 bits (70), Expect = 0.33
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 12/64 (18%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNV-MDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L Y T++QV + F + G + + D E K G FV + EE +
Sbjct: 8 NLVYSATSEQVKELFSQFGKVFNVKLIYDRET---------KKPKGFGFVEMQ-EESVSE 57
Query: 503 ALSK 506
A++K
Sbjct: 58 AIAK 61
>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 = 30.2 bits (69), Expect = 0.35
Identities = 12/73 (16%), Positives = 24/73 (32%), Gaps = 17/73 (23%)
Query: 442 RMR----GLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGD----AFVL 493
R+ L + T + + + + G +L +K + +A G A V
Sbjct: 1 RIALYIGNLTWWTTDEDLTEAVHSL---------GVNDILEIKFFENRANGQSKGFALVG 51
Query: 494 FEKEEEADKALSK 506
E + K +
Sbjct: 52 VGSEASSKKLMDL 64
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 32.0 bits (72), Expect = 0.43
Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 5/62 (8%)
Query: 445 GLPYECTAKQVIDFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKAL 504
L + T + + + S V D E F + +G++ G A V E + K +
Sbjct: 75 NLTWWTTDEDLTEAVH-----SLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 129
Query: 505 SK 506
Sbjct: 130 DL 131
>1yc9_A VCEC, multidrug resistance protein; outer membrane protein,
multidrug resistanc membrane protein; HET: BOG; 1.80A
{Vibrio cholerae}
Length = 442
Score = 32.3 bits (74), Expect = 0.54
Identities = 13/69 (18%), Positives = 21/69 (30%), Gaps = 10/69 (14%)
Query: 199 AQAQYAKSQQDNLMLMNQIAAQQMAALNKPHNMALNGHTPTLIPAPSPNALMPPPLNSKS 258
A+A A + + L + I Q AL AL G P + +
Sbjct: 195 AKAVAASVEAELLGIQESI-QLQKNALA-----ALVGQGPDRAASIEEPHITLTSR---- 244
Query: 259 TTIPTNLPA 267
+P+
Sbjct: 245 YGLPSEAGV 253
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 30.1 bits (68), Expect = 0.54
Identities = 9/35 (25%), Positives = 14/35 (40%)
Query: 472 GEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
G+ F + DGK G F+ + A A+
Sbjct: 46 GKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKN 80
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 29.7 bits (67), Expect = 0.54
Identities = 9/35 (25%), Positives = 14/35 (40%)
Query: 472 GEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
G+ F + DGK G F+ + A A+
Sbjct: 32 GKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKN 66
>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 = 29.4 bits (67), Expect = 0.65
Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L E T + F G + V+ D GK+ G FV F + +A+
Sbjct: 13 DLSPEITTAAIAAAFAPFGRISDARVVKDMA---------TGKSKGYGFVSFFNKWDAEN 63
Query: 503 ALS 505
A+
Sbjct: 64 AIQ 66
>3mcs_A Putative monooxygenase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 2.55A {Fusobacterium nucleatum subsp}
Length = 219
Score = 31.2 bits (70), Expect = 0.69
Identities = 13/108 (12%), Positives = 34/108 (31%), Gaps = 7/108 (6%)
Query: 457 DFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSKHKESIGIRYI 516
+ A + M E+GVL + + + E + A S H ++
Sbjct: 22 SYKSATEDYVNKTMGVEQGVLGLFAATDERDKTTSYIVEIYND-YLAFSNHTKN------ 74
Query: 517 ELFRSTTAEVQQVLNKTMELPKNNSLTSSNNGLSAQQPMLSHLAQVPV 564
+ + A + Q+ + + + + + + + + V
Sbjct: 75 QASKDFKAVIPQIAEGNLNSAEIDVQIAKDKKIEQNDNTFAVYTVIDV 122
>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 = 29.8 bits (67), Expect = 0.72
Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 15/88 (17%)
Query: 424 GNNNEAQAFLTRGAQVIIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKP 482
G++ + + ++ +RGL +++ E GT + +V
Sbjct: 1 GSSGSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGT------------ICYVMMM 48
Query: 483 DGKATGDAFVLFEKEEEADKALSKHKES 510
K A V FE + A + ++ +
Sbjct: 49 PFK--RQALVEFENIDSAKECVTFAADV 74
>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 = 30.0 bits (68), Expect = 0.76
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 11/63 (17%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVM-DGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L E T + + F G + V+ D G K+ G FV F + +A+
Sbjct: 22 DLSPEITTEDIKAAFAPFGRISDARVVKDMATG---------KSKGYGFVSFFNKWDAEN 72
Query: 503 ALS 505
A+
Sbjct: 73 AIQ 75
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 30.1 bits (68), Expect = 0.79
Identities = 9/32 (28%), Positives = 12/32 (37%)
Query: 475 GVLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
+ + D G A V F EEAD +
Sbjct: 52 QIRKLLLFDRHPDGVASVSFRDPEEADYCIQT 83
Score = 28.5 bits (64), Expect = 2.4
Identities = 9/46 (19%), Positives = 14/46 (30%), Gaps = 2/46 (4%)
Query: 78 YQGVHMVYNSQGQPSGEAFIQMDSEHSAYLAAQLRHNRNMIFGKKQ 123
+ + + P G A + A Q R FG +Q
Sbjct: 50 FGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGR--WFGGRQ 93
>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 = 29.2 bits (66), Expect = 0.83
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 95 AFIQMDSEHSAYLAAQLRHNRNMIFGKK 122
AFIQ + +A +AA+ N+ ++ G++
Sbjct: 51 AFIQFATRQAAEVAAEKSFNKLIVNGRR 78
>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 = 29.5 bits (67), Expect = 0.86
Identities = 10/63 (15%), Positives = 21/63 (33%), Gaps = 15/63 (23%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
GL + + F+ G+ + + G A++ +E + A A
Sbjct: 24 GLGPNTSLAALAREFDRFGS------------IRTIDHVKGD--SFAYIQYESLDAAQAA 69
Query: 504 LSK 506
+K
Sbjct: 70 CAK 72
>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 = 29.5 bits (67), Expect = 0.91
Identities = 12/63 (19%), Positives = 19/63 (30%), Gaps = 15/63 (23%)
Query: 445 GLPYECTAKQVIDFF-EAGTENSCNVMDGEEGVLFVKKPDGKATGD--AFVLFEKEEEAD 501
L + T ++ F + G K + D FV F + +A
Sbjct: 22 NLSRDVTEVLILQLFSQIGP------------CKSCKMITEHTSNDPYCFVEFYEHRDAA 69
Query: 502 KAL 504
AL
Sbjct: 70 AAL 72
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 29.4 bits (66), Expect = 0.95
Identities = 13/68 (19%), Positives = 23/68 (33%), Gaps = 15/68 (22%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
R LP + T +VI G + ++ K AF+ EE A+
Sbjct: 22 RKLPIDVTEGEVISLGLPFGKVTNLLML--------------KGKNQAFIEMNTEEAANT 67
Query: 503 ALSKHKES 510
++ +
Sbjct: 68 MVNYYTSV 75
>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 = 29.2 bits (66), Expect = 1.1
Identities = 9/62 (14%), Positives = 19/62 (30%), Gaps = 18/62 (29%)
Query: 445 GLPYE-CTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
LP + + + + F G N+ + F F+ F+ +
Sbjct: 29 NLPLKNVSKEDLFRIFSPYGHIMQINIKNA-----F-----------GFIQFDNPQSVRD 72
Query: 503 AL 504
A+
Sbjct: 73 AI 74
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 29.2 bits (66), Expect = 1.2
Identities = 12/63 (19%), Positives = 22/63 (34%), Gaps = 15/63 (23%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P+ T +I F+ G +L K K G F+ ++ E+A
Sbjct: 34 NIPHFATEADLIPLFQNFGF------------ILDFKHYPEK--GCCFIKYDTHEQAAVC 79
Query: 504 LSK 506
+
Sbjct: 80 IVA 82
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 29.5 bits (66), Expect = 1.3
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 479 VKKPDGKATGDAFVLFEKEEEADKAL 504
V +G A+++F +E A +
Sbjct: 64 VVDLSDDNSGKAYIVFATQESAQAFV 89
>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 = 29.3 bits (66), Expect = 1.4
Identities = 13/62 (20%), Positives = 17/62 (27%), Gaps = 18/62 (29%)
Query: 445 GLPYE-CTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
L V F G C+V G + AFV + E A
Sbjct: 34 NLNTALVKKSDVETIFSKYGRVAGCSVHKG-----Y-----------AFVQYSNERHARA 77
Query: 503 AL 504
A+
Sbjct: 78 AV 79
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 28.7 bits (65), Expect = 1.4
Identities = 9/62 (14%), Positives = 19/62 (30%), Gaps = 18/62 (29%)
Query: 445 GLPYE-CTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
LP + + + + F G N+ + F F+ F+ +
Sbjct: 17 NLPLKNVSKEDLFRIFSPYGHIMQINIKNA-----F-----------GFIQFDNPQSVRD 60
Query: 503 AL 504
A+
Sbjct: 61 AI 62
>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 = 29.0 bits (65), Expect = 1.4
Identities = 16/68 (23%), Positives = 22/68 (32%), Gaps = 15/68 (22%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
R LP E T +VI G V + GK AF+ EE A
Sbjct: 21 RKLPGEVTETEVIALGLPFGK------------VTNILMLKGK--NQAFLELATEEAAIT 66
Query: 503 ALSKHKES 510
++ +
Sbjct: 67 MVNYYSAV 74
>3f44_A Putative monooxygenase; YP_193413.1, structural genomics, JO center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE; 1.55A {Lactobacillus acidophilus ncfm}
Length = 220
Score = 29.6 bits (66), Expect = 2.2
Identities = 15/111 (13%), Positives = 32/111 (28%), Gaps = 10/111 (9%)
Query: 457 DFFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKALSKHKESIGIRYI 516
++ +N + + EEG L + A G+ E A H
Sbjct: 22 EYIRYAEKNMHDSIPAEEGTLLIGSGHDDAHGEDNYEIEVFRN-KGAEDLHIAG------ 74
Query: 517 ELFRSTTAEVQQVLNKTMELPKNNSLTSSNNGLSAQQP---MLSHLAQVPV 564
V ++ K + + + ++ + + L +V V
Sbjct: 75 SHADDFVETVNKIATKQKVIDLHPEVITTKAQRALNSYADNFVMRLIKVEV 125
>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 = 28.9 bits (65), Expect = 2.4
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 9/62 (14%)
Query: 445 GLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADKA 503
+P Q+ FE G S ++ + ++ G FV F+ A +A
Sbjct: 49 YIPTTVDEVQLRQLFERYGPIESVKIV--------CDRETRQSRGYGFVKFQSGSSAQQA 100
Query: 504 LS 505
++
Sbjct: 101 IA 102
>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 = 28.3 bits (63), Expect = 2.5
Identities = 13/84 (15%), Positives = 30/84 (35%), Gaps = 10/84 (11%)
Query: 445 GLPYECTAKQVID----FFEAGTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEA 500
GL +V+ F + G + + + + A+V + + E+A
Sbjct: 22 GLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSY-----AGSQGPSASAYVTYIRSEDA 76
Query: 501 DKALSK-HKESIGIRYIELFRSTT 523
+A+ + + R ++ TT
Sbjct: 77 LRAIQCVNNVVVDGRTLKASLGTT 100
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint
center for struc genomics, JCSG, protein structure
initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus
musculus} PDB: 2lq5_A
Length = 114
Score = 28.5 bits (64), Expect = 2.5
Identities = 6/31 (19%), Positives = 12/31 (38%)
Query: 476 VLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
V+ + A G+ +V A A++
Sbjct: 44 VIHIYVDKNSAQGNVYVKCPSIAAAIAAVNA 74
>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 = 28.0 bits (63), Expect = 2.6
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 483 DGKATGDAFVLFEKEEEADKAL 504
K G AFV+F++ A AL
Sbjct: 47 SLKMRGQAFVIFKEVSSATNAL 68
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline,
PPII helix, peptide recognition, RNA binding protein;
2.20A {Homo sapiens} SCOP: d.58.7.3
Length = 104
Score = 28.3 bits (63), Expect = 2.8
Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 445 GLPYECTAKQVIDFFEAGTEN---SCNVMDGE-EGVLFVKKPDGKATGDAFVLFEKEEEA 500
GL + ++ + ++ E GE E + G+ +V F +EE+A
Sbjct: 22 GLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDA 81
Query: 501 DKALSK 506
+KA+
Sbjct: 82 EKAVID 87
>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 = 28.1 bits (63), Expect = 3.1
Identities = 17/71 (23%), Positives = 22/71 (30%), Gaps = 16/71 (22%)
Query: 441 IRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVK----KPDGKATGDAFVLFE 495
+ M L + F G E V+ VK + G G FV F
Sbjct: 12 LWMGDLEPYMDENFISRAFATMG-----------ETVMSVKIIRNRLTGIPAGYCFVEFA 60
Query: 496 KEEEADKALSK 506
A+K L K
Sbjct: 61 DLATAEKCLHK 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 = 28.0 bits (62), Expect = 3.8
Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 15/72 (20%)
Query: 440 IIRMRGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEE 498
+I +R LP + T +VI G V + GK AF+ EE
Sbjct: 33 VIHIRKLPIDVTEGEVISLGLPFGK------------VTNLLMLKGK--NQAFIEMNTEE 78
Query: 499 EADKALSKHKES 510
A+ ++ +
Sbjct: 79 AANTMVNYYTSV 90
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 27.4 bits (61), Expect = 4.2
Identities = 12/67 (17%), Positives = 21/67 (31%), Gaps = 15/67 (22%)
Query: 444 RGLPYECTAKQVIDFFEA-GTENSCNVMDGEEGVLFVKKPDGKATGDAFVLFEKEEEADK 502
RGL +++ + G + +V K A V FE A
Sbjct: 27 RGLIDGVVEADLVEALQEFGP------------ISYVVVMPKK--RQALVEFEDVLGACN 72
Query: 503 ALSKHKE 509
A++ +
Sbjct: 73 AVNYAAD 79
>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 = 29.1 bits (64), Expect = 4.3
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 481 KPDGKATGDAFVLFEKEEEADKAL 504
K G AFV+F++ A AL
Sbjct: 46 SRSLKMRGQAFVIFKEVSSATNAL 69
>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 = 28.3 bits (63), Expect = 5.1
Identities = 19/151 (12%), Positives = 45/151 (29%), Gaps = 33/151 (21%)
Query: 377 RRNGEAIVRFIDQEHRDMALKR-HKHHIDKRYIEVTKANGEDFINVAGGNNNEAQA---- 431
+ A+V+ D +A+ + H + + I +T + ++ G ++
Sbjct: 39 NKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYG 98
Query: 432 ------FLTRGAQV---------IIRMRGLPYECTAKQVID-FFEAGTENSCNVMDGEEG 475
F G++ + + +P + + + F G ++
Sbjct: 99 NSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR 158
Query: 476 VLFVKKPDGKATGDAFVLFEKEEEADKALSK 506
A + EEA +AL
Sbjct: 159 ------------KMALIQMGSVEEAVQALID 177
>1prx_A HORF6; peroxiredoxin, hydrogen peroxide, redox regulation, cellular
signaling, antioxidant; 2.00A {Homo sapiens} SCOP:
c.47.1.10
Length = 224
Score = 27.6 bits (62), Expect = 9.3
Identities = 13/81 (16%), Positives = 25/81 (30%), Gaps = 16/81 (19%)
Query: 378 RNGEAIVRFIDQEHRDMALKRH-KHHIDKRYIEVTKAN---GEDFINVAGGNNNEAQAFL 433
RN + I+R + +L+ + T + G+ + + EA+
Sbjct: 155 RNFDEILRVVI------SLQLTAEKR------VATPVDWKDGDSVMVLPTIPEEEAKKLF 202
Query: 434 TRGAQVIIRMRGLPYECTAKQ 454
+G G Y Q
Sbjct: 203 PKGVFTKELPSGKKYLRYTPQ 223
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
0.319 0.136 0.402
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: 9,153,081
Number of extensions: 553958
Number of successful extensions: 1565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1434
Number of HSP's successfully gapped: 261
Length of query: 612
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 513
Effective length of database: 3,937,614
Effective search space: 2019995982
Effective search space used: 2019995982
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: 60 (26.8 bits)