BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 043732
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 107 bits (266), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 50/85 (58%), Positives = 63/85 (74%)
Query: 8 EADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGS 67
+ D+ K+FVGGL + T +LR YFE FGDI EAVVIT + TG+S+GYGFVT D +
Sbjct: 12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAA 71
Query: 68 ALRACANPSPMIGGRKANCNLAHLG 92
A RAC +P+P+I GRKAN NLA+LG
Sbjct: 72 AERACKDPNPIIDGRKANVNLAYLG 96
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 46/71 (64%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
KLFVGGL W T +TLR+YF Q+G++++ V++ K T +S+G+GFV F+DP A+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 75 PSPMIGGRKAN 85
+ GR +
Sbjct: 78 RPHTLDGRNID 88
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 51/91 (56%)
Query: 6 GAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDP 65
G+ S+ K+F+GGL+W+T + LR YF QFG++ E +V+ T RS+G+GFVTF D
Sbjct: 18 GSHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQ 77
Query: 66 GSALRACANPSPMIGGRKANCNLAHLGRTRP 96
+ A + + + +A R +P
Sbjct: 78 AGVDKVLAQSRHELDSKTIDPKVAFPRRAQP 108
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 42/68 (61%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
K FVGGL+W+T+ L+ YF +FG++++ + NTGRS+G+GF+ F+D S +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 75 PSPMIGGR 82
+ GR
Sbjct: 73 KEHRLDGR 80
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 64.3 bits (155), Expect = 6e-11, Method: Composition-based stats.
Identities = 26/50 (52%), Positives = 37/50 (74%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRD 64
K+F+GGL+W+T + LR YF QFG++ E +V+ T RS+G+GFVTF D
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMD 51
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing
7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta
(Prn) Gg); A Human Telomeric Repeat Containing
Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(2pr) G); A Human Telomeric Repeat
Containing 2-Aminopurine
Length = 196
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 40/49 (81%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR++FEQ+G + + VV+ NT RS+G+GFVT+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+K+FVGG+ +T LR YFEQ+G I ++T + +G+ +G+ FVTF D S +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164
Query: 74 NPSPMIGGRKANCNL 88
+ G NC +
Sbjct: 165 QKYHTVNGH--NCEV 177
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(6-Mi) G); A Human Telomeric Repeat
Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 40/49 (81%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR++FEQ+G + + VV+ NT RS+G+GFVT+
Sbjct: 13 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 61
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+K+FVGG+ +T LR YFEQ+G I ++T + +G+ +G+ FVTF D S +
Sbjct: 104 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 163
Query: 74 NPSPMIGGRKANCNL 88
+ G NC +
Sbjct: 164 QKYHTVNGH--NCEV 176
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 40/49 (81%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR++FEQ+G + + VV+ NT RS+G+GFVT+
Sbjct: 15 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 63
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+K+FVGG+ +T LR YFEQ+G I ++T + +G+ +G+ FVTF D S +
Sbjct: 106 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 165
Query: 74 NPSPMIGGRKANCNL 88
+ G NC +
Sbjct: 166 QKYHTVNGH--NCEV 178
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 46/78 (58%), Gaps = 5/78 (6%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFR---DPGSALRA 71
KLFVGGL+++TN +L F ++G I E VV+ + T RS+G+GFVTF D A+ A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 72 CANPSPMIGGRKANCNLA 89
S + GR+ + A
Sbjct: 74 MNGKS--VDGRQIRVDQA 89
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 40/49 (81%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR++FEQ+G + + VV+ NT RS+G+GFVT+
Sbjct: 14 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 62
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+K+FVGG+ +T LR YFEQ+G I ++T + +G+ +G+ FVTF D S +
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164
Query: 74 NPSPMIGGRKANCNL 88
+ G NC +
Sbjct: 165 QKYHTVNGH--NCEV 177
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 40/49 (81%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR++FEQ+G + + VV+ NT RS+G+GFVT+
Sbjct: 7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 55
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+K+FVGG+ +T LR YFEQ+G I ++T + +G+ +G+ FVTF D S +
Sbjct: 98 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 157
Query: 74 NPSPMIGGRKANCNL 88
+ G NC +
Sbjct: 158 QKYHTVNGH--NCEV 170
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 40/49 (81%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR++FEQ+G + + VV+ NT RS+G+GFVT+
Sbjct: 12 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTY 60
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+K+FVGG+ +T LR YFEQ+G I ++T + +G+ +G+ FVTF D S +
Sbjct: 103 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 162
Query: 74 NPSPMIGGRKANCNL 88
+ G NC +
Sbjct: 163 QKYHTVNGH--NCEV 175
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 25/49 (51%), Positives = 38/49 (77%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
RKLF+GGL++ET ++LR Y+EQ+G + + VV+ + RS+G+GFVTF
Sbjct: 28 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition
In The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 36/54 (66%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSA 68
K+F+GGL W+T D LR YF ++G + + ++ TGRS+G+GF++F P S
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSV 58
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 40/76 (52%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
K+FVGG+ + +F Q+G I++A ++ K+TG+S+G+GFVT+ + R C N
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Query: 75 PSPMIGGRKANCNLAH 90
RK A
Sbjct: 149 KFIDFKDRKIEIKRAE 164
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 57.4 bits (137), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 1/87 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
L V GL W+T L+ YF FG++L V TG SKG+GFV F + + ++ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ- 76
Query: 76 SPMIGGRKANCNLAHLGRTRPDLPSFG 102
MI GR +C L + +++ PS G
Sbjct: 77 RHMIDGRWCDCKLPNSKQSQDSGPSSG 103
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/61 (47%), Positives = 36/61 (59%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
S + L+VG L + D LR FE FG I V++ +TGRSKGYGF+TF D A R
Sbjct: 3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARR 62
Query: 71 A 71
A
Sbjct: 63 A 63
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 56.6 bits (135), Expect = 1e-08, Method: Composition-based stats.
Identities = 21/52 (40%), Positives = 36/52 (69%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGS 67
+F+GGL+W+T L+ YF +FG++++ + TGRS+G+GFV F++ S
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESES 53
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 54.7 bits (130), Expect = 5e-08, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 40/74 (54%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+FVGGL+ T + ++ YFEQFG + +A+++ K T R +G+GFVTF + C
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 76 SPMIGGRKANCNLA 89
I + C A
Sbjct: 62 FHEINNKMVECKKA 75
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 36/103 (34%), Positives = 56/103 (54%), Gaps = 2/103 (1%)
Query: 2 AGAYGAEADSANR-KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV 60
+G+ G + D++N +FVG L+ E ++ +++ F FG I +A V+ TG+SKGYGFV
Sbjct: 3 SGSSGQKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFV 62
Query: 61 TFRDPGSALRACANP-SPMIGGRKANCNLAHLGRTRPDLPSFG 102
+F + A A + +GGR+ N A P PS G
Sbjct: 63 SFYNKLDAENAIVHMGGQWLGGRQIRTNWATRKPPAPSGPSSG 105
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 33/60 (55%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
+L+VG L + D LR FE FG I ++ TGRSKGYGF+TF D A +A
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 43/88 (48%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
K+FVGG+ LR YF++FG + E V+I R +G+GF+TF D S +A
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71
Query: 75 PSPMIGGRKANCNLAHLGRTRPDLPSFG 102
I G+K A ++ PS G
Sbjct: 72 HFHDIMGKKVEVKRAEPRDSKSSGPSSG 99
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In
Cytotoxic Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 50/90 (55%), Gaps = 2/90 (2%)
Query: 2 AGAYGAEADSANR-KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV 60
+G+ G + D++N +FVG L+ E ++ ++ F FG I +A V+ TG+SKGYGFV
Sbjct: 3 SGSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFV 62
Query: 61 TFRDPGSALRACANP-SPMIGGRKANCNLA 89
+F + A A +GGR+ N A
Sbjct: 63 SFFNKWDAENAIQQMGGQWLGGRQIRTNWA 92
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
KLF+GGL ETN L+ F + G I E ++I + T +S+G+ F+TF +P A A +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 48/95 (50%), Gaps = 1/95 (1%)
Query: 9 ADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSA 68
D + R +FVG + +E + L+ F + G ++ ++ + TG+ KGYGF ++D +A
Sbjct: 4 VDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETA 63
Query: 69 LRACANPS-PMIGGRKANCNLAHLGRTRPDLPSFG 102
L A N + GR + A + + +L S G
Sbjct: 64 LSAMRNLNGREFSGRALRVDNAASEKNKEELKSLG 98
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC-AN 74
L V L + T+ DTLR FE++G + + + + T S+G+ FV F D A A A
Sbjct: 50 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 109
Query: 75 PSPMIGGRKANCNLAHLGR 93
++ GR+ +A GR
Sbjct: 110 DGAVLDGRELRVQMARYGR 128
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 33/57 (57%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
KLF+G + + L+ FE+FG I E V+ + TG KG F+T+ + SAL+A
Sbjct: 15 KLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC-AN 74
L V L + T+ DTLR FE++G + + + + T S+G+ FV F D A A A
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 75 PSPMIGGRKANCNLAHLGR 93
++ GR+ +A GR
Sbjct: 133 DGAVLDGRELRVQMARYGR 151
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 42/93 (45%), Gaps = 1/93 (1%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
+ R L+VGGLA E + L F FGDI + + T + +G+ FV F A
Sbjct: 10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 69
Query: 71 ACANPSP-MIGGRKANCNLAHLGRTRPDLPSFG 102
A N + + GR NLA R + PS G
Sbjct: 70 AIDNMNESELFGRTIRVNLAKPMRIKESGPSSG 102
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 6 GAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDP 65
G+ S KLF+G L E +R+ FEQ+G +LE +I K YGFV D
Sbjct: 1 GSSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDK 52
Query: 66 GSALRACAN 74
+A A N
Sbjct: 53 TAAEDAIRN 61
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 1/86 (1%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
R L V + + LR FE++G I ++ + T +S+GYGFV F+ SA +A A
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIA 102
Query: 74 NPSPM-IGGRKANCNLAHLGRTRPDL 98
+ I ++ LA G RP +
Sbjct: 103 GLNGFNILNKRLKVALAASGHQRPGI 128
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 32/47 (68%), Gaps = 1/47 (2%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+FVGG+ + +R++F ++G + E +IT + TG SKGYGFV+F
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSF 58
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 32/47 (68%), Gaps = 1/47 (2%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+FVGG+ + +R++F ++G + E +IT + TG SKGYGFV+F
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSF 57
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 32/47 (68%), Gaps = 1/47 (2%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+FVGG+ + +R++F ++G + E +IT + TG SKGYGFV+F
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSF 57
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
++ LFV GL+ +T +TL+ E F + A ++T + TG SKG+GFV F A A
Sbjct: 15 SKTLFVKGLSEDTTEETLK---ESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAK 71
Query: 73 -ANPSPMIGGRKANCNLAH 90
A I G K + A
Sbjct: 72 EAMEDGEIDGNKVTLDWAK 90
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 32/57 (56%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
KLFVG + + L+ FE+FG I E V+ + TG KG F+T+ SAL+A
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 36/68 (52%)
Query: 7 AEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPG 66
AE A +++V + + + D +++ FE FG I A + TG+ KGYGF+ +
Sbjct: 119 AEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQ 178
Query: 67 SALRACAN 74
S+ A ++
Sbjct: 179 SSQDAVSS 186
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 43/91 (47%), Gaps = 2/91 (2%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
+++VG + +E DT+R F FG I + T + KG+ FV + P +A A
Sbjct: 30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 89
Query: 75 P-SPMIGGRKANCNL-AHLGRTRPDLPSFGH 103
S M+GGR +++G+ +P +
Sbjct: 90 MNSVMLGGRNIKVGRPSNIGQAQPIIDQLAE 120
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 7 AEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPG 66
E S ++L V + + LR F QFG IL+ +I N SKG+GFVTF +
Sbjct: 23 TENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSA 80
Query: 67 SALRACANP-SPMIGGRKANCNLA 89
A RA ++ GRK N A
Sbjct: 81 DADRAREKLHGTVVEGRKIEVNNA 104
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain
Of Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 32/51 (62%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRD 64
+K+FVGGL+ +T + +R YF FG++ + T + +G+ F+TF++
Sbjct: 2 KKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 52
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 37/81 (45%), Gaps = 1/81 (1%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
+ R L+VGGLA E + L F FGDI + + T + +G+ FV F A
Sbjct: 5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 64
Query: 71 ACANPSP-MIGGRKANCNLAH 90
A N + + GR NLA
Sbjct: 65 AIDNMNESELFGRTIRVNLAK 85
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 12 ANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
++RKLFVG L + + D +R FE FG+I E ++ + G SKG FV +
Sbjct: 14 SHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKY 63
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 37/81 (45%), Gaps = 1/81 (1%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
+ R L+VGGLA E + L F FGDI + + T + +G+ FV F A
Sbjct: 3 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 62
Query: 71 ACANPSP-MIGGRKANCNLAH 90
A N + + GR NLA
Sbjct: 63 AIDNMNESELFGRTIRVNLAK 83
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 38/77 (49%), Gaps = 3/77 (3%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
++L V + + LR F QFG IL+ +I N SKG+GFVTF + A RA
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRARE 73
Query: 74 NP-SPMIGGRKANCNLA 89
++ GRK N A
Sbjct: 74 KLHGTVVEGRKIEVNNA 90
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
LFVG L + +TLR F+ F L V+ TG S+GYGFV+F A A +
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 76 SPM-IGGRKANCNLA 89
+ GR N A
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 41.2 bits (95), Expect = 5e-04, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 1/79 (1%)
Query: 12 ANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
+ R L+VGGLA E + L F FGDI + + T + +G+ FV F A A
Sbjct: 1 SKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 60
Query: 72 CANPSPM-IGGRKANCNLA 89
N + + GR NLA
Sbjct: 61 IDNMNESELFGRTIRVNLA 79
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 35/68 (51%)
Query: 7 AEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPG 66
AE A +++V + + + D +++ FE FG I + TG+ KGYGF+ +
Sbjct: 103 AEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQ 162
Query: 67 SALRACAN 74
S+ A ++
Sbjct: 163 SSQDAVSS 170
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 2/91 (2%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
+++VG + +E DT+R F FG I T + KG+ FV + P +A A
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 75 P-SPMIGGRKANCNL-AHLGRTRPDLPSFGH 103
S +GGR +++G+ +P +
Sbjct: 74 XNSVXLGGRNIKVGRPSNIGQAQPIIDQLAE 104
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 29/57 (50%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
LFVG L + +TLR F+ F L V+ TG S+GYGFV+F A A
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 146
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 5/78 (6%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
R L+VG L D L+ YF+ G I ++ KN ++ Y FV + A A
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN-NKNVNYAFVEYHQSHDANIAL- 58
Query: 74 NPSPMIGGRKANCNLAHL 91
+ G++ N+ +
Sbjct: 59 ---QTLNGKQIENNIVKI 73
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 28/56 (50%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
L V L D ++ F GDI ++ K TG+S GYGFV + DP A +A
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKA 62
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
L V L D ++ F GDI ++ K TG+S GYGFV + DP A +A
Sbjct: 7 LIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAI 63
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
L+V GL + + F Q+G I+ + ++ + TG S+G GF+ F
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 139
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 35/68 (51%)
Query: 7 AEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPG 66
AE A +++V + + + D +++ FE FG I + TG+ KGYGF+ +
Sbjct: 104 AEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQ 163
Query: 67 SALRACAN 74
S+ A ++
Sbjct: 164 SSQDAVSS 171
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 43/91 (47%), Gaps = 2/91 (2%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
+++VG + +E DT+R F FG I + T + KG+ FV + P +A A
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 75 P-SPMIGGRKANCNL-AHLGRTRPDLPSFGH 103
S M+GGR +++G+ +P +
Sbjct: 75 MNSVMLGGRNIKVGRPSNIGQAQPIIDQLAE 105
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPG 66
R ++VG L + S+ ++ F QFG + +I + T + KG+GFV ++
Sbjct: 2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES 54
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
+ R L+VGGLA E + L F FGDI + + T + +G+ FV F A
Sbjct: 61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 120
Query: 71 ACANPSP-MIGGRKANCNLA 89
A N + + GR NLA
Sbjct: 121 AIDNMNESELFGRTIRVNLA 140
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+FVG L+ E + + F FG I +A V+ TG+SKGYGFV+F + A A
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 76 -SPMIGGRKANCNLA 89
+GGR+ N A
Sbjct: 69 GGQWLGGRQIRTNWA 83
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFR 63
+RKLFVG L + + +R FE FG I E V+ + G SKG FV F+
Sbjct: 12 DRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQ 61
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 41/88 (46%), Gaps = 1/88 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA-CAN 74
L V L + T+ D+LR FE++G + + + +T +G+ FV F D A A A
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM 75
Query: 75 PSPMIGGRKANCNLAHLGRTRPDLPSFG 102
+ GR+ +A GR PS G
Sbjct: 76 DGAELDGRELRVQVARYGRRDLSGPSSG 103
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF---RDPGS 67
A + LFV + ++T LR FE +G I ++ K +G+ +GY F+ + RD S
Sbjct: 100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHS 159
Query: 68 ALRACANPSPMIGGRKANCNLAHLGRT 94
A + I GR+ ++ GRT
Sbjct: 160 AYKHADGKK--IDGRRVLVDVER-GRT 183
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 2/84 (2%)
Query: 10 DSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSAL 69
DSA+ KLF+GGL N D ++ FG + ++ TG SKGY F + D
Sbjct: 112 DSAH-KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTD 170
Query: 70 RACANPSPM-IGGRKANCNLAHLG 92
+A A + M +G +K A +G
Sbjct: 171 QAIAGLNGMQLGDKKLLVQRASVG 194
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF---RDPGS 67
A + LFV + ++T LR FE +G I ++ K +G+ +GY F+ + RD S
Sbjct: 100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHS 159
Query: 68 ALRACANPSPMIGGRKANCNLAHLGRT 94
A + I GR+ ++ GRT
Sbjct: 160 AYKHADGKK--IDGRRVLVDVER-GRT 183
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
L++ GL T L + +G I+ I K T + KGYGFV F P +A +A
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 30/49 (61%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRD 64
+FVGGL+ +T + +R YF FG++ + T + +G+ F+TF++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKE 50
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 44/105 (41%), Gaps = 7/105 (6%)
Query: 3 GAYGAEADSANR----KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYG 58
G+ G+ D R L+V L + + LR F FG I A V+ GRSKG+G
Sbjct: 1 GSSGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFG 58
Query: 59 FVTFRDPGSALRACANPSPMIGGRK-ANCNLAHLGRTRPDLPSFG 102
FV F P A +A + I K LA R PS G
Sbjct: 59 FVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRKEERQSGPSSG 103
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 30/56 (53%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
LF+ L E L + F FG+++ A V K T SK +GFV+F +P SA A
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVA 98
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition
In The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
+R +++G + ++ + + G ++ ++ TGRSKGY F+ FRD S+ A
Sbjct: 4 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
Query: 73 ANPSP-MIGGRKANC 86
N + +G R C
Sbjct: 64 RNLNGYQLGSRFLKC 78
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
N + V L+ +T L+ F FG I + K TG+SKG+ F++F A RA
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
Query: 73 ANPS 76
A S
Sbjct: 75 AGVS 78
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+RKLF+G ++ + + +R F FG I E ++ + G S+G FVTF
Sbjct: 107 DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTF 155
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTG--RSKGYGFVTFRDPGSALRA 71
K+FVG + + LR FEQ+G + E V+ ++ +SKG FVTF +AL A
Sbjct: 17 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 75
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
+R +++G + ++ + + G ++ ++ TGRSKGY F+ FRD S+ A
Sbjct: 3 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 62
Query: 73 ANPSP-MIGGRKANC 86
N + +G R C
Sbjct: 63 RNLNGYQLGSRFLKC 77
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 7/83 (8%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
+ +F+ L++++ + L +QFGD+ V+ H +T SKG F F +A + A
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLA 75
Query: 74 NPS-------PMIGGRKANCNLA 89
S + GR+ +LA
Sbjct: 76 AASLEAEGGGLKLDGRQLKVDLA 98
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHK--NTGRSKGYGFVTFRDPGSALRA 71
K+FVG + + LR FEQ+G + E V+ + N +SKG FVTF +AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+RKLF+G ++ + + +R F FG I E ++ + G S+G FVTF
Sbjct: 95 DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTF 143
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTG--RSKGYGFVTFRDPGSALRA 71
K+FVG + + LR FEQ+G + E V+ ++ +SKG FVTF +AL A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+RKLF+G ++ + + +R F FG I E ++ + G S+G FVTF
Sbjct: 95 DRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTF 143
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTG--RSKGYGFVTFRDPGSALRA 71
K FVG + + LR FEQ+G + E V+ ++ +SKG FVTF +AL A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
+R +++G + ++ + + G ++ ++ TGRSKGY F+ FRD S+ A
Sbjct: 2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
Query: 73 ANPSP-MIGGRKANC 86
N + +G R C
Sbjct: 62 RNLNGYQLGSRFLKC 76
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 32/69 (46%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
KLF+GGL N D ++ FG + ++ TG SKGY F + D +A A
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 75 PSPMIGGRK 83
+ M G K
Sbjct: 158 LNGMQLGDK 166
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 30/53 (56%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSA 68
++V L + ++ L F ++G +++ ++ K+T +SKG F+ F D SA
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA 71
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 1/79 (1%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
KLF+GGL N D ++ FG + ++ TG SKGY F + D +A A
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 75 PSPM-IGGRKANCNLAHLG 92
+ M +G +K A +G
Sbjct: 63 LNGMQLGDKKLLVQRASVG 81
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 32/69 (46%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
KLF+GGL N D ++ FG + ++ TG SKGY F + D +A A
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 75 PSPMIGGRK 83
+ M G K
Sbjct: 156 LNGMQLGDK 164
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human
Pabpc1 A Ph 9.0
Length = 115
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+F+ L ++ L F FG+IL V+ +N SKGYGFV F +A RA
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 76 SPMI 79
+ M+
Sbjct: 66 NGML 69
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+F+ L ++ L F FG+IL V+ +N SKGYGFV F +A RA
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 163
Query: 76 SPMI 79
+ M+
Sbjct: 164 NGML 167
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 25/56 (44%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
L+VG L + L F G IL V T RS GY +V F+ P A RA
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of
Hypothetical Polyadenylate-Binding Protein (Pabpn1)
From Homo Sapiens At 1.95 A Resolution
Length = 89
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 6 GAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDP 65
G EAD+ R ++VG + + ++ L +F G + ++ K +G KG+ ++ F D
Sbjct: 1 GXEADA--RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDK 58
Query: 66 GSALRACANPSPMIGGRK 83
S + A + GR+
Sbjct: 59 ESVRTSLALDESLFRGRQ 76
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
L V GL+ T LR F ++G I + ++ + + RS+G+ FV F + A A
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 108
Query: 76 SPM-IGGRKANCNLAHLGR 93
+ M + GR+ + + R
Sbjct: 109 NGMELDGRRIRVDFSITKR 127
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 26/57 (45%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
L V L D LR+ F G++ A +I K G S GYGFV + A RA
Sbjct: 7 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 63
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+F+ L ++ L F FG+IL V+ +N SKGYGFV F +A RA
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 71
Query: 76 SPMI 79
+ M+
Sbjct: 72 NGML 75
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+F+ L ++ L F FG+IL V+ +N SKGYGFV F +A RA
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 158
Query: 76 SPMI 79
+ M+
Sbjct: 159 NGML 162
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 25/56 (44%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
L+VG L + L F G IL V T RS GY +V F+ P A RA
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The
C-Fos Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The
Tumor Necrosis Factor Alpha Rna
Length = 167
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
L V L + R+ F G+I ++ K TG+S GYGFV + DP A +A
Sbjct: 5 LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
L+V GL L F Q+G I+ + ++ + TG S+G GF+ F
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
L V GL+ T LR F ++G I + ++ + + RS+G+ FV F + A A
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 74
Query: 76 SPM-IGGRKANCNLAHLGR 93
+ M + GR+ + + R
Sbjct: 75 NGMELDGRRIRVDFSITKR 93
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
LF+ L E L F FG+++ A V K T SK +GFV++ +P SA A +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 76 SP-MIGGRKANCNLAHLGRTRPDLPS 100
+ IG ++ L R++ D S
Sbjct: 88 NGFQIGMKRLK---VQLKRSKNDSKS 110
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
L V GL+ T LR F ++G I + ++ + + RS+G+ FV F + A A
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 76 SPM-IGGRKANCNLAHLGR 93
+ M + GR+ + + R
Sbjct: 78 NGMELDGRRIRVDFSITKR 96
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTG---RSKGYGFVTFRDPGSALRA 71
LF+ L + T +TL+ F + G I + KN S G+GFV ++ P A +A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 66
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 9/83 (10%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
K+FVG ++ S LR+ FE+ G ++E V+ K Y FV A A A
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEADAKAAIAQ 62
Query: 75 PS-PMIGGRKANCNLAHLGRTRP 96
+ + G++ N L+ G+ +
Sbjct: 63 LNGKEVKGKRINVELSTKGQKKS 85
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The
Second Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 3/78 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF---RDPGSALRAC 72
L+V L D L T F ++G I++ ++ K TGR +G FV + + A+ A
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 73 ANPSPMIGGRKANCNLAH 90
N P G + + LA
Sbjct: 76 NNVIPEGGSQPLSVRLAE 93
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 26/57 (45%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
L V L D LR+ F G++ A +I K G S GYGFV + A RA
Sbjct: 22 LIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 78
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 26/57 (45%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
L V L D LR+ F G++ A +I K G S GYGFV + A RA
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
L++ GL + F +FG I+ + V+ + TG S+G F+ F A A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITS 149
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of
Hur Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of
Hur Complexed With Rna
Length = 177
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 26/57 (45%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
L V L D LR+ F G++ A +I K G S GYGFV + A RA
Sbjct: 5 LIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAI 61
Score = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
L++ GL + F +FG I+ + V+ + TG S+G F+ F A A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITS 149
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 9/68 (13%)
Query: 14 RKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRS----KGYGFVTFRDPGSA- 68
RK+FVGGL + + D + F +FG ++ V HK +S KGY F+ F++ S
Sbjct: 9 RKVFVGGLPPDIDEDEITASFRRFGPLV--VDWPHKAESKSYFPPKGYAFLLFQEESSVQ 66
Query: 69 --LRACAN 74
+ AC
Sbjct: 67 ALIDACLE 74
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 3/78 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF---RDPGSALRAC 72
L+V L D L T F ++G I++ ++ K TGR +G FV + + A+ A
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 73 ANPSPMIGGRKANCNLAH 90
N P G + + LA
Sbjct: 163 NNVIPEGGSQPLSVRLAE 180
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 1/69 (1%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
L V GL+ T LR F ++G I + ++ + + RS+G+ FV F + A A
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 77
Query: 76 SPM-IGGRK 83
+ M + GR+
Sbjct: 78 NGMELDGRR 86
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 2/76 (2%)
Query: 8 EADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGS 67
EAD+ R ++VG + + ++ L +F G + ++ K +G KG+ ++ F D S
Sbjct: 2 EADA--RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKES 59
Query: 68 ALRACANPSPMIGGRK 83
+ A + GR+
Sbjct: 60 VRTSLALDESLFRGRQ 75
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
L+V GL + + F Q+G I+ + ++ + TG S+G GF+ F
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRF 50
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACAN 74
+LFV L++ ++ + L F +G + E T + KG+ FVTF P A++A A
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF---RDPGSALRAC 72
L+V L D L T F ++G I++ ++ K TGR +G FV + + A+ A
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 73 ANPSPMIGGRKANCNLA 89
N P G + + LA
Sbjct: 152 NNVIPEGGSQPLSVRLA 168
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEA-VVITHKNTGRSKGYGFVTF 62
+F+G L E + L F FG IL+ ++ +TG SKGY F+ F
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINF 55
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 6 GAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDP 65
G+ S ++FV L ++ L+ F + G +L A + G+SKG G V F P
Sbjct: 1 GSSGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESP 58
Query: 66 GSALRACANPSPM-IGGRKANCNL 88
A RAC + M + GR+ + +
Sbjct: 59 EVAERACRMMNGMKLSGREIDVRI 82
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
R ++VG + + + + L +F G I ++ K +G KGY ++ F + S A
Sbjct: 36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95
Query: 73 ANPSPMIGGR 82
A + GR
Sbjct: 96 AMDETVFRGR 105
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+RKLFVG L + + + + F+ FG I E V+ + G SKG FV F
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKF 63
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
S + +FVG + D LR +F Q+GD+++ + + + FVTF D A
Sbjct: 3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFI-----PKPFRAFAFVTFADDQIAQS 57
Query: 71 AC 72
C
Sbjct: 58 LC 59
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+FV L ++ L+ F + G +L A + G+SKG G V F P A RAC
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADI--KMENGKSKGCGVVKFESPEVAERACRMM 65
Query: 76 SPM-IGGRKANCNL 88
+ M + GR+ + +
Sbjct: 66 NGMKLSGREIDVRI 79
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 37/89 (41%), Gaps = 10/89 (11%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
N ++ GG+A +R F FG I+E V KGY FV F SA A
Sbjct: 25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAI 78
Query: 73 ANPS-PMIGGRKANCNLAHLGRTRPDLPS 100
+ + I G C + G+ PD+ S
Sbjct: 79 VSVNGTTIEGHVVKC---YWGKESPDMTS 104
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 39/101 (38%), Gaps = 11/101 (10%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
LFVG L + + L +F + + TG SKGYGFV F D RA
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTEC 71
Query: 76 SPMIGGRKANCNLAHLGRTRPDLPSFGHPRPSSAAPLFGSP 116
+G LG ++P S P+ S P+ P
Sbjct: 72 QGAVG----------LG-SKPVRLSVAIPKASRVKPVESGP 101
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSAL 69
++ L + L++ +TL+ FE+ I + G+SKGY F+ +F D AL
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFI----KVPQNQNGKSKGYAFIEFASFEDAKEAL 70
Query: 70 RAC 72
+C
Sbjct: 71 NSC 73
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 33.9 bits (76), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 2 AGAYGA-EADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV 60
+G+ GA +A +FV L ++ L+ F G ++ A ++ K+ G+S+G G V
Sbjct: 3 SGSSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTV 61
Query: 61 TFRDPGSALRACA 73
TF A++A +
Sbjct: 62 TFEQSIEAVQAIS 74
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 33.5 bits (75), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
LFV LA + L F +FG + + + K Y FV F D G+A++A
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKL--------ERVKKLKDYAFVHFEDRGAAVKAM 66
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFG--DILEAVVITHKNTGRSKGYGFV 60
L++G L W T + L G DILE ++ G+SKG+ V
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 117
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 8/73 (10%)
Query: 8 EADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAV--------VITHKNTGRSKGYGF 59
+ +S N +FV GL +++ YF+Q G I + T + TG+ KG
Sbjct: 2 QDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEAT 61
Query: 60 VTFRDPGSALRAC 72
V+F DP SA A
Sbjct: 62 VSFDDPPSAKAAI 74
>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding
Protein Fus From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6430a
Length = 99
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 8/68 (11%)
Query: 13 NRKLFVGGLAWETNSDTLRTYFEQFGDILEAV--------VITHKNTGRSKGYGFVTFRD 64
N +FV GL +++ YF+Q G I + T + TG+ KG V+F D
Sbjct: 13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 72
Query: 65 PGSALRAC 72
P SA A
Sbjct: 73 PPSAKAAI 80
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 12/75 (16%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF--RDPG-SALRAC 72
L V L+ +++ L F QFG + +AVV+ + GR+ G GFV F + P AL C
Sbjct: 99 LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERC 157
Query: 73 AN--------PSPMI 79
+ P P+I
Sbjct: 158 GDGAFLLTTTPRPVI 172
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+LFVG L + + + FE++G+ E + R +G+GF+
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRL 65
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
LFV + E D ++ F +G+I + + TG SKGY V + AL A
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/67 (22%), Positives = 33/67 (49%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANP 75
+++ GL +E + + +F++ + +++ I + G++ G GFV FR+ A
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRH 87
Query: 76 SPMIGGR 82
+G R
Sbjct: 88 KQYMGNR 94
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 8/73 (10%)
Query: 8 EADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAV--------VITHKNTGRSKGYGF 59
+ DS N ++V GL D L +F+Q G + + K TG+ KG
Sbjct: 10 DEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDAT 69
Query: 60 VTFRDPGSALRAC 72
V++ DP +A A
Sbjct: 70 VSYEDPPTAKAAV 82
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 37 FGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
FG + ++ + TG+SKGYGF + SA RA
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRS--KGYGFVTF---RDPGSAL 69
K+ V + ++ N +R F FG+ L+ V + K TG +G+GFV F +D A
Sbjct: 17 KILVRNIPFQANQREIRELFSTFGE-LKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 75
Query: 70 RACANPSPMIGGR 82
A + + + G R
Sbjct: 76 NALCHSTHLYGRR 88
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 37 FGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
FG + ++ + TG+SKGYGF + SA RA
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 37 FGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRA 71
FG + ++ + TG+SKGYGF + SA RA
Sbjct: 117 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex
pdb|3P5T|M Chain M, Cfim25-Cfim68 Complex
pdb|3P5T|N Chain N, Cfim25-Cfim68 Complex
pdb|3P5T|O Chain O, Cfim25-Cfim68 Complex
pdb|3P5T|P Chain P, Cfim25-Cfim68 Complex
pdb|3P5T|Q Chain Q, Cfim25-Cfim68 Complex
pdb|3P6Y|C Chain C, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|D Chain D, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|G Chain G, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|H Chain H, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|K Chain K, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|L Chain L, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|O Chain O, Cf Im25-Cf Im68-Uguaa Complex
pdb|3P6Y|P Chain P, Cf Im25-Cf Im68-Uguaa Complex
Length = 90
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFG--DILEAVVITHKNTGRSKGYGFV 60
L++G L W T + L G DILE ++ G+SKG+ V
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 50
>pdb|2Y9K|A Chain A, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|B Chain B, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|C Chain C, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|D Chain D, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|E Chain E, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|F Chain F, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|G Chain G, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|H Chain H, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|I Chain I, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|J Chain J, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|K Chain K, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|L Chain L, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|M Chain M, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|N Chain N, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
pdb|2Y9K|O Chain O, Three-Dimensional Model Of Salmonella's Needle Complex
At Subnanometer Resolution
Length = 137
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 22/47 (46%)
Query: 27 SDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACA 73
D+LRT+F+ L+ VI K R K G F DP + L +
Sbjct: 6 DDSLRTFFDAMALQLKEPVIVSKMAARKKITGNFEFHDPNALLEKLS 52
>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
pdb|3N9U|I Chain I, Crystal Structure Of The Complex Between The 25 Kda
Subunit And The 59 Kda Subunit (Rrm Domain) Of Human
Cleavage Factor Im
Length = 156
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 13 NRK--LFVGGLAWETNSDTLRTYFEQFG--DILEAVVITHKNTGRSKGYGFVTFRDPGSA 68
NR+ ++VG +W T L G D++E ++ G+SKGY V S
Sbjct: 53 NRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSV 112
Query: 69 LRACA-NPSPMIGGRKANCNLAHLGRTRPDLPSF 101
+ P ++ G K + A TR +L F
Sbjct: 113 HKLLELLPGKVLNGEKVDVRPA----TRQNLSQF 142
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRAC 72
K+FVG + ++ L+ +F Q+G++++ + + + FVTF D A C
Sbjct: 13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFADDKVAQSLC 65
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 31.6 bits (70), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 2 AGAYGAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVT 61
+G G E KL V L + + ++ F +FG + +A V + +GRS G V
Sbjct: 77 SGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAV-DYDRSGRSLGTADVH 135
Query: 62 FRDPGSALRA 71
F AL+A
Sbjct: 136 FERRADALKA 145
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSAL--RACA 73
LFV + E D ++ F +G+I + + TG SKGY V + AL +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 74 NPSPMIG 80
N + ++G
Sbjct: 135 NGAEIMG 141
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 1/74 (1%)
Query: 17 FVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALRACANPS 76
+VG L + T + F+ I ++ K+T + KG+ +V F + S A
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDG 77
Query: 77 PMIGGRKANCNLAH 90
++G R ++A
Sbjct: 78 ALLGDRSLRVDIAE 91
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
+LFVG L + + +R FE++G E V HK+ KG+GF+
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGE--VFIHKD----KGFGFIRL 65
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSA 68
++VGGL + + L F Q G ++ + + TG+ +GYGFV F A
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDA 70
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition
Motif Of Nono
Length = 99
Score = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 6/46 (13%)
Query: 15 KLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV 60
+LFVG L + + +R FE++G E V HK+ KG+GF+
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGE--VFIHKD----KGFGFI 56
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 2 AGAYGAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVT 61
+G G E KL V L + + ++ F +FG + +A V + +GRS G V
Sbjct: 24 SGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAV-DYDRSGRSLGTADVH 82
Query: 62 FRDPGSALRA 71
F AL+A
Sbjct: 83 FERRADALKA 92
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 1/70 (1%)
Query: 2 AGAYGAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVT 61
+G G E KL V L + + ++ F +FG + +A V + +GRS G V
Sbjct: 24 SGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAV-DYDRSGRSLGTADVH 82
Query: 62 FRDPGSALRA 71
F AL+A
Sbjct: 83 FERRADALKA 92
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
NR L++ L ++ ++ + F ++G I + I NT ++G +V + D A
Sbjct: 10 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKN 66
Query: 71 AC 72
AC
Sbjct: 67 AC 68
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
NR L++ L ++ ++ + F ++G I + I NT ++G +V + D A
Sbjct: 16 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKN 72
Query: 71 AC 72
AC
Sbjct: 73 AC 74
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 8/80 (10%)
Query: 10 DSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSAL 69
D L+VGGL LR +F QFG+I V+ + F+ F +A
Sbjct: 9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAE 62
Query: 70 RACANP--SPMIGGRKANCN 87
A ++ GR+ N
Sbjct: 63 VAAEKSFNKLIVNGRRLNVK 82
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 8/67 (11%)
Query: 8 EADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGS 67
E + +N +LFV + L F FG + E ++ G+ FV F + S
Sbjct: 26 EGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVEFEEAES 77
Query: 68 ALRACAN 74
A +A
Sbjct: 78 AAKAIEE 84
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of
The Spliceosomal Protein P14 Bound To A Region Of
Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of
The Spliceosomal Protein P14 Bound To A Region Of
Sf3b155
Length = 125
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 11 SANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTFRDPGSALR 70
NR L + L ++ ++ + F ++G I + I NT ++G +V + D A
Sbjct: 16 EVNRILMIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKN 72
Query: 71 AC 72
AC
Sbjct: 73 AC 74
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSALRAC 72
LFV G+ E + + F ++G+I + + TG KGY V T+++ +A+
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 73 ANPSPM 78
M
Sbjct: 86 NGQDLM 91
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSALRAC 72
LFV G+ E + + F ++G+I + + TG KGY V T+++ +A+
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 73 ANPSPM 78
M
Sbjct: 72 NGQDLM 77
>pdb|2XB2|D Chain D, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
Length = 90
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSALR 70
LFV G+ E + + F ++G+I + + TG KGY V T+++ +A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSALRAC 72
LFV G+ E + + F ++G+I + + TG KGY V T+++ +A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 73 ANPSPM 78
M
Sbjct: 70 NGQDLM 75
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 4/88 (4%)
Query: 17 FVGGLAWETNSDTLRTYFEQFGDILEAVVITHK--NTGRSKGYGFVTFRDPGSALRACAN 74
F+G L ++ ++++ +F G + AV + + N R KG+G+ F D S L A +
Sbjct: 19 FLGNLPYDVTEESIKEFFR--GLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSL 76
Query: 75 PSPMIGGRKANCNLAHLGRTRPDLPSFG 102
+G ++ ++A + + PS G
Sbjct: 77 NEESLGNKRIRVDVADQAQDKDSGPSSG 104
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSALRAC 72
LFV G+ E + + F ++G+I + + TG KGY V T+++ +A+
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 73 ANPSPM 78
M
Sbjct: 85 NGQDLM 90
>pdb|3DIV|A Chain A, Crystal Structure Of Laccase From Cerrena Maxima At 1.76a
Resolution
Length = 499
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 49/119 (41%), Gaps = 22/119 (18%)
Query: 136 YWY-----TAYAPGFFNPQGLYNP---YVGQHYLPLYGAPGTVNSGMYSHGQLGHHFPGG 187
+WY T Y G P +Y+P + ++ + T+ ++ +LG FP G
Sbjct: 106 FWYHSHLSTQYCDGLRGPFVVYDPNDPHASRYDVDNDDTVITLADWYHTAAKLGPRFPAG 165
Query: 188 HDNTVVRGYGMLGHHIVPYGGPNDNGLTSAAFPMIQPPHTAGVSDNFRTGSDNNSPAFS 246
D T++ G G P+D TSA +I+ T G FR S + P F+
Sbjct: 166 ADATLINGKGR---------APSD---TSAELSVIKV--TKGKRXRFRLVSLSCDPNFT 210
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 8/70 (11%)
Query: 3 GAYGAEADSANRKLFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFVTF 62
G+ G+ + + LFV LA + L F QFG + + + K Y F+ F
Sbjct: 1 GSSGSSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKL--------ERVKKLKDYAFIHF 52
Query: 63 RDPGSALRAC 72
+ A++A
Sbjct: 53 DERDGAVKAM 62
>pdb|3PXL|A Chain A, Type-2 Cu-Depleted Fungus Laccase From Trametes Hirsuta
Length = 499
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 136 YWY-----TAYAPGFFNPQGLYNP---YVGQHYLPLYGAPGTVNSGMYSHGQLGHHFPGG 187
+WY T Y G P +Y+P + ++ + T+ ++ +LG FPGG
Sbjct: 106 FWYHSHLSTQYCDGLRGPFVVYDPNDPHASRYDVDNDDTVITLADWYHTAAKLGPRFPGG 165
Query: 188 HDNTVVRGYG 197
D T++ G G
Sbjct: 166 ADATLINGKG 175
>pdb|3FPX|A Chain A, Native Fungus Laccase From Trametes Hirsuta
pdb|3V9C|A Chain A, Type-2 Cu-Depleted Fungus Laccase From Trametes Hirsuta At
Low Dose Of Ionization Radiation
Length = 499
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 136 YWY-----TAYAPGFFNPQGLYNP---YVGQHYLPLYGAPGTVNSGMYSHGQLGHHFPGG 187
+WY T Y G P +Y+P + ++ + T+ ++ +LG FPGG
Sbjct: 106 FWYHSHLSTQYCDGLRGPFVVYDPNDPHASRYDVDNDDTVITLADWYHTAAKLGPRFPGG 165
Query: 188 HDNTVVRGYG 197
D T++ G G
Sbjct: 166 ADATLINGKG 175
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
Length = 109
Score = 27.7 bits (60), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 16 LFVGGLAWETNSDTLRTYFEQFGDILEAVVITHKNTGRSKGYGFV---TFRDPGSALRAC 72
LFV G+ E + + F ++G+I + + TG KGY V T+++ +A+
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 73 ANPSPM 78
M
Sbjct: 70 NGQDLM 75
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.138 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,798,695
Number of Sequences: 62578
Number of extensions: 469871
Number of successful extensions: 949
Number of sequences better than 100.0: 161
Number of HSP's better than 100.0 without gapping: 113
Number of HSP's successfully gapped in prelim test: 48
Number of HSP's that attempted gapping in prelim test: 794
Number of HSP's gapped (non-prelim): 185
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)