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= 039503
(259 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 = 118 bits (296), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 52/82 (63%), Positives = 65/82 (79%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESAR 71
DTTFTK+FVGGL + T +R+YFE FGDI EAV+I+D+ TGKS+GYGFVT D +A
Sbjct: 14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
Query: 72 RACDNPNPVIDGRRANCNIASL 93
RAC +PNP+IDGR+AN N+A L
Sbjct: 74 RACKDPNPIIDGRKANVNLAYL 95
>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 = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 46/68 (67%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K FVGGL+W+T ++++ YF +FG++++ I D NTG+S+G+GF+ F+D S + D
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 77 PNPVIDGR 84
+DGR
Sbjct: 73 KEHRLDGR 80
>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 = 45/71 (63%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+FVGGL W T E +R YF Q+G++++ VI+ DK T +S+G+GFV F+DP +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 77 PNPVIDGRRAN 87
+DGR +
Sbjct: 78 RPHTLDGRNID 88
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 65.1 bits (157), Expect = 3e-11, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 45/75 (60%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+F+GGL+W+T E +R YF QFG++ E +++ D T +S+G+GFVTF D +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 77 PNPVIDGRRANCNIA 91
+D + + +A
Sbjct: 62 SRHELDSKTIDPKVA 76
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
K+F+GGL+W+T E +R YF QFG++ E +++ D T +S+G+GFVTF D +
Sbjct: 26 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 85
Query: 76 NPNPVIDGRRANCNIA 91
+D + + +A
Sbjct: 86 QSRHELDSKTIDPKVA 101
>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 = 64.7 bits (156), Expect = 4e-11, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 48/74 (64%), Gaps = 5/74 (6%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+GGL+W+T ++++ YF +FG++++ + D TG+S+G+GFV F++ ES + D
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 78 N-----PVIDGRRA 86
VID +RA
Sbjct: 62 EHKLNGKVIDPKRA 75
>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 = 28/70 (40%), Positives = 45/70 (64%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
K+F+GGL++ET E +R +FEQ+G + + V++ D NT +S+G+GFVT+ E A
Sbjct: 13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Query: 75 DNPNPVIDGR 84
+ +DGR
Sbjct: 73 NARPHKVDGR 82
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
T K+FVGG+ +T +R YFEQ+G I I++D+ +GK +G+ FVTF D +S +
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Query: 74 CDNPNPVIDGRRANCNI 90
++G NC +
Sbjct: 163 VIQKYHTVNGH--NCEV 177
>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 = 28/70 (40%), Positives = 45/70 (64%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
K+F+GGL++ET E +R +FEQ+G + + V++ D NT +S+G+GFVT+ E A
Sbjct: 14 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 73
Query: 75 DNPNPVIDGR 84
+ +DGR
Sbjct: 74 NARPHKVDGR 83
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
T K+FVGG+ +T +R YFEQ+G I I++D+ +GK +G+ FVTF D +S +
Sbjct: 104 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 163
Query: 74 CDNPNPVIDGRRANCNI 90
++G NC +
Sbjct: 164 VIQKYHTVNGH--NCEV 178
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 63.5 bits (153), Expect = 1e-10, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 45/74 (60%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FVGGL+ T E+++ YFEQFG + +A+++ DK T + +G+GFVTF + + C+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 78 NPVIDGRRANCNIA 91
I+ + C A
Sbjct: 62 FHEINNKMVECKKA 75
>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 = 28/70 (40%), Positives = 45/70 (64%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
K+F+GGL++ET E +R +FEQ+G + + V++ D NT +S+G+GFVT+ E A
Sbjct: 12 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 71
Query: 75 DNPNPVIDGR 84
+ +DGR
Sbjct: 72 NARPHKVDGR 81
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
T K+FVGG+ +T +R YFEQ+G I I++D+ +GK +G+ FVTF D +S +
Sbjct: 102 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 161
Query: 74 CDNPNPVIDGRRANCNI 90
++G NC +
Sbjct: 162 VIQKYHTVNGH--NCEV 176
>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 = 28/70 (40%), Positives = 45/70 (64%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
K+F+GGL++ET E +R +FEQ+G + + V++ D NT +S+G+GFVT+ E A
Sbjct: 6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 65
Query: 75 DNPNPVIDGR 84
+ +DGR
Sbjct: 66 NARPHKVDGR 75
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
T K+FVGG+ +T +R YFEQ+G I I++D+ +GK +G+ FVTF D +S +
Sbjct: 96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 155
Query: 74 CDNPNPVIDGRRANCNI 90
++G NC +
Sbjct: 156 VIQKYHTVNGH--NCEV 170
>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 = 28/70 (40%), Positives = 45/70 (64%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
K+F+GGL++ET E +R +FEQ+G + + V++ D NT +S+G+GFVT+ E A
Sbjct: 13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Query: 75 DNPNPVIDGR 84
+ +DGR
Sbjct: 73 NARPHKVDGR 82
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
T K+FVGG+ +T +R YFEQ+G I I++D+ +GK +G+ FVTF D +S +
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Query: 74 CDNPNPVIDGRRANCNI 90
++G NC +
Sbjct: 163 VIQKYHTVNGH--NCEV 177
>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 = 28/70 (40%), Positives = 45/70 (64%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
K+F+GGL++ET E +R +FEQ+G + + V++ D NT +S+G+GFVT+ E A
Sbjct: 11 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 70
Query: 75 DNPNPVIDGR 84
+ +DGR
Sbjct: 71 NARPHKVDGR 80
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 2/77 (2%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
T K+FVGG+ +T +R YFEQ+G I I++D+ +GK +G+ FVTF D +S +
Sbjct: 101 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 160
Query: 74 CDNPNPVIDGRRANCNI 90
++G NC +
Sbjct: 161 VIQKYHTVNGH--NCEV 175
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 42/68 (61%)
Query: 11 GDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESA 70
G + + ++VG L + + +R FE FG I V++ D +TG+SKGYGF+TF D E A
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
Query: 71 RRACDNPN 78
RRA + N
Sbjct: 61 RRALEQLN 68
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 49/76 (64%), Gaps = 1/76 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+FVGGL+++T + + + F ++G I E V++ D+ T +S+G+GFVTF + + A+ A
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 77 PN-PVIDGRRANCNIA 91
N +DGR+ + A
Sbjct: 74 MNGKSVDGRQIRVDQA 89
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 46/81 (56%)
Query: 4 PHYRSQFGDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVT 63
P R + F K+F+GGL++ET E +R Y+EQ+G + + V++ D + +S+G+GFVT
Sbjct: 16 PLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVT 75
Query: 64 FRDPESARRACDNPNPVIDGR 84
F A IDGR
Sbjct: 76 FSSMAEVDAAMAARPHSIDGR 96
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+ V GL W+T ++++ YF FG++L + D TG SKG+GFV F + E+ +
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR 77
Query: 78 NPVIDGRRANCNI 90
+ +IDGR +C +
Sbjct: 78 H-MIDGRWCDCKL 89
>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 = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 41/60 (68%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+FVGG+ + +E +F Q+G I++A ++ DK+TG+S+G+GFVT+ ++ R C N
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 4/74 (5%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+F+GGL W+T + +R YF ++G + + I+ D TG+S+G+GF++F P S
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 77 PN----PVIDGRRA 86
+ VID +RA
Sbjct: 65 QHILDGKVIDPKRA 78
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 38/62 (61%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
+++VG L + + +R FE FG I ++ D TG+SKGYGF+TF D E A++A +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
Query: 77 PN 78
N
Sbjct: 88 LN 89
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 42/76 (55%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
K+FVGG+ E+R YF++FG + E V+I D + +G+GF+TF D +S +A +
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 76 NPNPVIDGRRANCNIA 91
I G++ A
Sbjct: 71 MHFHDIMGKKVEVKRA 86
>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 = 54.7 bits (130), Expect = 5e-08, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 37/56 (66%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARR 72
K+FVGGL+ +TP E++R YF FG++ + D T K +G+ F+TF++ E ++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 58
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/57 (47%), Positives = 36/57 (63%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
VFVG L+ E TE+++ F FG I +A ++ D TGKSKGYGFV+F + A A
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAI 74
>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 = 54.3 bits (129), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN- 76
VFVG L+ E TE+++ F FG I +A ++ D TGKSKGYGFV+F + A A
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 77 PNPVIDGRRANCNIAS 92
+ GR+ N A+
Sbjct: 78 GGQWLGGRQIRTNWAT 93
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 39/62 (62%), Gaps = 1/62 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+F+GGL ET + ++ F + G I E ++I D+ T KS+G+ F+TF +P A+ A +
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 77 PN 78
N
Sbjct: 68 MN 69
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 39/67 (58%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESAR 71
D + VFVG + +E E+++ F + G ++ ++ D+ TGK KGYGF ++D E+A
Sbjct: 5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETAL 64
Query: 72 RACDNPN 78
A N N
Sbjct: 65 SAMRNLN 71
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 52.4 bits (124), Expect = 3e-07, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 36/55 (65%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARR 72
+FVGGL+ +TP E++R YF FG++ + D T K +G+ F+TF++ E ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 56
>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 = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
T + V L + T + +RR FE++G + + I D+ T +S+G+ FV F D A A
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Query: 75 DNPN-PVIDGRRANCNIA 91
D + V+DGR +A
Sbjct: 107 DAMDGAVLDGRELRVQMA 124
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 37/63 (58%), Gaps = 3/63 (4%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESAR---RAC 74
V+V L + ++ R F ++G +++ I+ DK+T KSKG F+ F D +SA+ RA
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI 78
Query: 75 DNP 77
+N
Sbjct: 79 NNK 81
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
T + V L + T + +RR FE++G + + I D+ T +S+G+ FV F D A A
Sbjct: 70 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 129
Query: 75 DNPN-PVIDGRRANCNIA 91
D + V+DGR +A
Sbjct: 130 DAMDGAVLDGRELRVQMA 147
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 49.3 bits (116), Expect = 2e-06, Method: Composition-based stats.
Identities = 32/82 (39%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 11 GDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESA 70
G TT ++VGGLA E + + F FGDI + I D T K +G+ FV F E A
Sbjct: 1 GSTTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 60
Query: 71 RRACDNPNPV-IDGRRANCNIA 91
A DN N + GR N+A
Sbjct: 61 AAAIDNMNESELFGRTIRVNLA 82
>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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 36/58 (62%), Gaps = 1/58 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
VFVGG+ E+R +F ++G + E II+D+ TG SKGYGFV+F + ++ +
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 45/93 (48%), Gaps = 5/93 (5%)
Query: 1 MAYPHYRSQFGDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYG 60
M PH F +FV + ++T ++RR FE +G I ++ K +GK +GY
Sbjct: 88 MWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYA 147
Query: 61 FVTF---RDPESARRACDNPNPVIDGRRANCNI 90
F+ + RD SA + D IDGRR ++
Sbjct: 148 FIEYEHERDMHSAYKHADGKK--IDGRRVLVDV 178
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 11 GDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESA 70
G + K+F+G L E +E+R FEQ+G +LE II K YGFV D +A
Sbjct: 4 GSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAA 55
Query: 71 RRACDN 76
A N
Sbjct: 56 EDAIRN 61
>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 = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 45/93 (48%), Gaps = 5/93 (5%)
Query: 1 MAYPHYRSQFGDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYG 60
M PH F +FV + ++T ++RR FE +G I ++ K +GK +GY
Sbjct: 88 MWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYA 147
Query: 61 FVTF---RDPESARRACDNPNPVIDGRRANCNI 90
F+ + RD SA + D IDGRR ++
Sbjct: 148 FIEYEHERDMHSAYKHADGKK--IDGRRVLVDV 178
>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 = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 36/64 (56%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
F +++V + + ++++ FE FG I A + D TGK KGYGF+ + +S++ A
Sbjct: 125 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAV 184
Query: 75 DNPN 78
+ N
Sbjct: 185 SSMN 188
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
++V+VG + +E + +R+ F FG I + D T K KG+ FV + PE+A+ A
Sbjct: 27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 74 CDNPNPVIDGRR 85
+ N V+ G R
Sbjct: 87 LEQMNSVMLGGR 98
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 36/58 (62%), Gaps = 1/58 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
VFVGG+ E+R +F ++G + E II+D+ TG SKGYGFV+F + ++ +
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 69
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
VFVGG+ E+R +F ++G + E II+D+ TG SKGYGFV+F + ++ ++
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVES 69
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/89 (35%), Positives = 48/89 (53%), Gaps = 8/89 (8%)
Query: 4 PHYRSQFGDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVT 63
P+ RSQ T +FV GL+ +T E ++ E F + A I++D+ TG SKG+GFV
Sbjct: 8 PNARSQPSKT----LFVKGLSEDTTEETLK---ESFDGSVRARIVTDRETGSSKGFGFVD 60
Query: 64 FRDPESARRACDN-PNPVIDGRRANCNIA 91
F E A+ A + + IDG + + A
Sbjct: 61 FNSEEDAKAAKEAMEDGEIDGNKVTLDWA 89
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 13 TTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARR 72
TT ++VGGLA E + + F FGDI + I D T K +G+ FV F E A
Sbjct: 10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 69
Query: 73 ACDNPNPV-IDGRRANCNIA 91
A DN N + GR N+A
Sbjct: 70 AIDNMNESELFGRTIRVNLA 89
>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 = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 33/63 (52%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L EE R F G+I ++ DK TG+S GYGFV + DP+ A +A +
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 76 NPN 78
N
Sbjct: 63 TLN 65
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++V GL +E+ + F Q+G I+ + I+ D+ TG S+G GF+ F A A
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 78 N 78
N
Sbjct: 151 N 151
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 47.0 bits (110), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESAR 71
D TF +FVG L E +R F+ F L ++ D TG S+GYGFV+F + A+
Sbjct: 85 DDTFN-LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQ 143
Query: 72 RACD 75
A D
Sbjct: 144 NAMD 147
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG L + +++YF+ G I I+ DKN K+ Y FV + A A
Sbjct: 3 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN-KNVNYAFVEYHQSHDANIAL--- 58
Query: 78 NPVIDGRRANCNIASL 93
++G++ NI +
Sbjct: 59 -QTLNGKQIENNIVKI 73
>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 = 47.0 bits (110), Expect = 1e-05, Method: Composition-based stats.
Identities = 31/80 (38%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 13 TTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARR 72
TT ++VGGLA E + + F FGDI + I D T K +G+ FV F E A
Sbjct: 5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 64
Query: 73 ACDNPNPV-IDGRRANCNIA 91
A DN N + GR N+A
Sbjct: 65 AIDNMNESELFGRTIRVNLA 84
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 32/63 (50%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L +E + F GDI ++ DK TG+S GYGFV + DP A +A +
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 76 NPN 78
N
Sbjct: 65 TLN 67
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 37/66 (56%)
Query: 8 SQFGDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDP 67
S D K+F+G + ++++ FE+FG I E ++ D+ TG KG F+T+ +
Sbjct: 6 SGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCER 65
Query: 68 ESARRA 73
ESA +A
Sbjct: 66 ESALKA 71
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 32/63 (50%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L +E + F GDI ++ DK TG+S GYGFV + DP A +A +
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 76 NPN 78
N
Sbjct: 65 TLN 67
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 32/61 (52%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++V GL +EM + F Q+G I+ + I+ D+ TG S+G GF+ F A A
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 78 N 78
N
Sbjct: 153 N 153
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 35/64 (54%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
F +++V + + ++++ FE FG I + D TGK KGYGF+ + +S++ A
Sbjct: 109 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
Query: 75 DNPN 78
+ N
Sbjct: 169 SSXN 172
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+V+VG + +E + +R+ F FG I D T K KG+ FV + PE+A+ A +
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALE 72
Query: 76 NPNPVIDGRR 85
N V G R
Sbjct: 73 QXNSVXLGGR 82
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 35/64 (54%)
Query: 15 FTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
F +++V + + ++++ FE FG I + D TGK KGYGF+ + +S++ A
Sbjct: 110 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 169
Query: 75 DNPN 78
+ N
Sbjct: 170 SSMN 173
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 38/72 (52%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
+V+VG + +E + +R+ F FG I + D T K KG+ FV + PE+A+ A
Sbjct: 12 IMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 71
Query: 74 CDNPNPVIDGRR 85
+ N V+ G R
Sbjct: 72 LEQMNSVMLGGR 83
>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 = 45.8 bits (107), Expect = 2e-05, Method: Composition-based stats.
Identities = 29/75 (38%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VGGLA E + + F FGDI + I D T K +G+ FV F E A A DN
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 78 NPV-IDGRRANCNIA 91
N + GR N+A
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 13 TTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARR 72
TT ++VGGLA E + + F FGDI + I D T K +G+ FV F E A
Sbjct: 61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 120
Query: 73 ACDNPNPV-IDGRRANCNIA 91
A DN N + GR N+A
Sbjct: 121 AIDNMNESELFGRTIRVNLA 140
>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 = 44.7 bits (104), Expect = 5e-05, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 32/59 (54%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
+FVG L E +R F+ F L ++ D TG S+GYGFV+F + A+ A D+
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG L + +E+++ F QFG + +I D+ T K KG+GFV ++ +
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 78 NPVIDGR 84
N GR
Sbjct: 64 NTDFMGR 70
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 38/63 (60%), Gaps = 3/63 (4%)
Query: 31 EMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPN-PVIDGRRANCN 89
++R+ F QFG IL+ II N SKG+GFVTF + A RA + + V++GR+ N
Sbjct: 45 DLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN 102
Query: 90 IAS 92
A+
Sbjct: 103 NAT 105
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 20 VGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPNP 79
V GL+ T ++R F ++G I + I+ D+ + +S+G+ FV F + + A+ A + N
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 80 V-IDGRRANCNIA 91
+ +DGRR + +
Sbjct: 111 MELDGRRIRVDFS 123
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 34/61 (55%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
V++G + ++ E++ G ++ ++ D TG+SKGY F+ FRD ES+ A N
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 66
Query: 78 N 78
N
Sbjct: 67 N 67
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 38/63 (60%), Gaps = 3/63 (4%)
Query: 31 EMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPN-PVIDGRRANCN 89
++R+ F QFG IL+ II N SKG+GFVTF + A RA + + V++GR+ N
Sbjct: 31 DLRQMFGQFGKILDVEIIF--NERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN 88
Query: 90 IAS 92
A+
Sbjct: 89 NAT 91
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 33/56 (58%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
+++ GL T +++ + + +G I+ I DK T K KGYGFV F P +A++A
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>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 = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 34/61 (55%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
V++G + ++ E++ G ++ ++ D TG+SKGY F+ FRD ES+ A N
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 65
Query: 78 N 78
N
Sbjct: 66 N 66
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 20 VGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPNP 79
V GL+ T ++R F ++G I + I+ D+ + +S+G+ FV F + + A+ A + N
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Query: 80 V-IDGRRANCNIA 91
+ +DGRR + +
Sbjct: 77 MELDGRRIRVDFS 89
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 20 VGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPNP 79
V GL+ T ++R F ++G I + I+ D+ + +S+G+ FV F + + A+ A + N
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 80 V-IDGRRANCNIA 91
+ +DGRR + +
Sbjct: 80 MELDGRRIRVDFS 92
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 34/61 (55%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
V++G + ++ E++ G ++ ++ D TG+SKGY F+ FRD ES+ A N
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL 64
Query: 78 N 78
N
Sbjct: 65 N 65
>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 = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L +E+R F G++ A +I DK G S GYGFV + + A RA +
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 64
Query: 76 NPN 78
N
Sbjct: 65 TLN 67
>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 = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+ L + + F FG+IL ++ D+N SKGYGFV F E+A RA +
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 163
Query: 78 NPVIDGRR 85
N ++ R
Sbjct: 164 NGMLLNDR 171
Score = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG L + + F G IL + D T +S GY +V F+ P A RA D
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 77
Query: 78 N-PVIDGR 84
N VI G+
Sbjct: 78 NFDVIKGK 85
>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 = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+ L + + F FG+IL ++ D+N SKGYGFV F E+A RA +
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 78 NPVI 81
N ++
Sbjct: 66 NGML 69
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 40/67 (59%), Gaps = 1/67 (1%)
Query: 20 VGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPNP 79
V GL+ T ++R F ++G I + I+ D+ + +S+G+ FV F + + A+ A + N
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 80 V-IDGRR 85
+ +DGRR
Sbjct: 80 MELDGRR 86
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESAR 71
D K+FVG + ++++ FE+FG I E ++ D+ TG KG F+T+ +SA
Sbjct: 12 DHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSAL 71
Query: 72 RA 73
+A
Sbjct: 72 KA 73
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+ L + + F FG+IL ++ D+N SKGYGFV F E+A RA +
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 158
Query: 78 NPVIDGRR 85
N ++ R
Sbjct: 159 NGMLLNDR 166
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG L + + F G IL + D T +S GY +V F+ P A RA D
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 72
Query: 78 N-PVIDGR 84
N VI G+
Sbjct: 73 NFDVIKGK 80
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L +E+R F G++ A +I DK G S GYGFV + + A RA +
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 79
Query: 76 NPN 78
N
Sbjct: 80 TLN 82
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 31/48 (64%)
Query: 31 EMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPN 78
++R+ FE++G I I+ D+ T +S+GYGFV F+ SA++A N
Sbjct: 58 QLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLN 105
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+ L + + F FG+IL ++ D+N SKGYGFV F E+A RA +
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 71
Query: 78 NPVI 81
N ++
Sbjct: 72 NGML 75
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L +E+R F G++ A +I DK G S GYGFV + + A RA +
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 76 NPN 78
N
Sbjct: 63 TLN 65
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+++ GL +++ F +FG I+ + ++ D+ TG S+G F+ F A A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 78 N 78
N
Sbjct: 151 N 151
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L +E+R F G++ A +I DK G S GYGFV + + A RA +
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAIN 62
Query: 76 NPN 78
N
Sbjct: 63 TLN 65
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+++ GL +++ F +FG I+ + ++ D+ TG S+G F+ F A A +
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAITSF 150
Query: 78 N 78
N
Sbjct: 151 N 151
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 32/61 (52%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++V GL +EM + F Q+G I+ + I+ D+ TG S+G GF+ F A A
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 78 N 78
N
Sbjct: 64 N 64
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN- 76
VFVG L+ E T + F FG I +A ++ D TGKSKGYGFV+F + A A
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 77 PNPVIDGRRANCNIAS 92
+ GR+ N A+
Sbjct: 69 GGQWLGGRQIRTNWAT 84
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 34/61 (55%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+ L E ++ F FG+++ A + DK T SK +GFV+F +P+SA+ A
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 78 N 78
N
Sbjct: 103 N 103
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
+ V L+ +T +++ F FG I + DK TG+SKG+ F++F E A RA
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
K+FVG L + +++RR FE FG+I E I+ + G SKG FV + A+ A
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGPD-GNSKGCAFVKYSSHAEAQAA 72
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG + + EE+ +F G + I+ DK +G KG+ ++ F D ES R +
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 68
Query: 78 NPVIDGR 84
+ GR
Sbjct: 69 ESLFRGR 75
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG + + EE+ +F G + I+ DK +G KG+ ++ F D ES R +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 67
Query: 78 NPVIDGR 84
+ GR
Sbjct: 68 ESLFRGR 74
>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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 36/61 (59%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+F+ L E +++ + F FG+++ A + DK T SK +GFV++ +P SA+ A +
Sbjct: 28 LFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM 87
Query: 78 N 78
N
Sbjct: 88 N 88
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 11 GDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESA 70
G + ++FV L ++ + ++ F + G +L A I + GKSKG G V F PE A
Sbjct: 4 GSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVA 61
Query: 71 RRACDNPNPV-IDGRRANCNI 90
RAC N + + GR + I
Sbjct: 62 ERACRMMNGMKLSGREIDVRI 82
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA-CD 75
++FV L++ + E++ + F +G + E D T K KG+ FVTF PE A +A +
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 76 NPNPVIDGRRANC 88
V GR +
Sbjct: 70 VDGQVFQGRMLHV 82
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++V L E +R+ F FG I A ++ + G+SKG+GFV F PE A +A
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 78 NPVI 81
N I
Sbjct: 76 NGRI 79
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGK---SKGYGFVTFRDPESARRAC 74
+F+ L + T E ++ F + G I I KN S G+GFV ++ PE A++A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 75 DNPNP-VIDGRRANCNIA 91
+DG + I+
Sbjct: 68 KQLQGHTVDGHKLEVRIS 85
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV L ++ + ++ F + G +L A I + GKSKG G V F PE A RAC
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMM 65
Query: 78 NPV-IDGRRANCNI 90
N + + GR + I
Sbjct: 66 NGMKLSGREIDVRI 79
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 36/72 (50%), Gaps = 12/72 (16%)
Query: 11 GDTTFT---KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRD- 66
G+ TFT ++FVG L + EEMR+ FE++G E I K KG+GF+
Sbjct: 15 GEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIRLETR 68
Query: 67 --PESARRACDN 76
E A+ DN
Sbjct: 69 TLAEIAKVELDN 80
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
K+FVG L + E++R+ FE FG I E ++ + G SKG FV F+ A+ A
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGPD-GTSKGCAFVKFQTHAEAQAA 69
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESA 70
VFVG L E + F Q G + + I D+ GK K +GFV F+ PES
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESV 70
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
VFVG + +E+R +F Q+GD+++ I + + FVTF D + A+ C
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI-----PKPFRAFAFVTFADDQIAQSLC 59
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
V+ GG+A + MR+ F FG I+E + + KGY FV F ESA A +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSV 81
Query: 78 N-PVIDGRRANC 88
N I+G C
Sbjct: 82 NGTTIEGHVVKC 93
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 20 VGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTF---RDPESARRACDN 76
V L + T + +RR FE++G + + I + +T +G+ FV F RD + A A D
Sbjct: 18 VDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDG 77
Query: 77 PNPVIDGRRANCNIA 91
+DGR +A
Sbjct: 78 AE--LDGRELRVQVA 90
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 8/66 (12%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILE--------AVIISDKNTGKSKGYGFVTFRDPES 69
+FV GL E + YF+Q G I + +D+ TGK KG V+F DP S
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 70 ARRACD 75
A+ A D
Sbjct: 76 AKAAID 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEA-VIISDKNTGKSKGYGFVTFRDPESARRACDN 76
+F+G L E + + F FG IL+ I+ D +TG SKGY F+ F +++ A +
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 77 PN 78
N
Sbjct: 68 MN 69
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
V+VG + + + +++ +F G I I+ DK +G KGY ++ F + S A
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMD 98
Query: 78 NPVIDGR 84
V GR
Sbjct: 99 ETVFRGR 105
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 8/66 (12%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILE--------AVIISDKNTGKSKGYGFVTFRDPES 69
+FV GL E + YF+Q G I + +D+ TGK KG V+F DP S
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 70 ARRACD 75
A+ A D
Sbjct: 70 AKAAID 75
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDK--NTGKSKGYGFVTFRDPESARRA 73
K+FVG + +++R FEQ+G + E ++ D+ N +SKG FVTF ++A A
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDK--NTGKSKGYGFVTFRDPES 69
D K+FVG + +++R FEQ+G + E ++ D+ N +SKG FVTF ++
Sbjct: 12 DLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 71
Query: 70 ARRA 73
A A
Sbjct: 72 ALEA 75
Score = 34.7 bits (78), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTF 64
K+F+G ++ + ++R F FG I E I+ + G S+G FVTF
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTF 155
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In
Rna-Binding Protein 14
Length = 90
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 9/77 (11%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+FVG ++ ++E+R FE+ G ++E ++ D Y FV A+ A
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQ 62
Query: 77 PN-PVIDGRRANCNIAS 92
N + G+R N +++
Sbjct: 63 LNGKEVKGKRINVELST 79
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFG--DILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+++G L W T E++ G DILE ++ G+SKG+ V S+++ D
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 6/68 (8%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+KVFVG + EE++++F Q+G++++ I + + FVTF D + A+ C
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFADDKVAQSLC- 65
Query: 76 NPNPVIDG 83
+ +I G
Sbjct: 66 GEDLIIKG 73
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
VFV L ++ ++++ F G ++ A I+ DK+ GKS+G G VTF A +A
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAISMF 76
Query: 78 N 78
N
Sbjct: 77 N 77
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 7/81 (8%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC--- 74
VF+ L++++ E + +QFGD+ ++ +T SKG F F E+A++
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA 77
Query: 75 ----DNPNPVIDGRRANCNIA 91
+ +DGR+ ++A
Sbjct: 78 SLEAEGGGLKLDGRQLKVDLA 98
>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 = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 12/71 (16%)
Query: 12 DTTFT---KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRD-- 66
+ TFT ++FVG L + EEMR+ FE++G E I D KG+GF+
Sbjct: 9 EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRT 62
Query: 67 -PESARRACDN 76
E A+ DN
Sbjct: 63 LAEIAKVELDN 73
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESA 70
VF LA ++ +F G + + IISD+N+ +SKG +V F + +S
Sbjct: 28 VFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSV 80
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 36.6 bits (83), Expect = 0.013, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESAR 71
D T T ++VGGL ++R +F QFG+I ++ + F+ F ++A
Sbjct: 9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAE 62
Query: 72 RACDNP--NPVIDGRRAN 87
A + +++GRR N
Sbjct: 63 VAAEKSFNKLIVNGRRLN 80
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTG--KSKGYGFVTFRDPESARRA 73
K+FVG + +++R FEQ+G + E ++ D++ +SKG FVTF ++A A
Sbjct: 4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Score = 34.3 bits (77), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTF 64
K+F+G ++ + ++R F FG I E I+ + G S+G FVTF
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSRGCAFVTF 143
>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 = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFG--DILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+++G L W T E++ G DILE ++ G+SKG+ V S+++ D
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
V+VGGL + + F Q G ++ + D+ TG+ +GYGFV F E A A
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
>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 = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+F+GGL ++++ FG + ++ D TG SKGY F + D +A
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 77 PN 78
N
Sbjct: 176 LN 177
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
K+FVG L + E++ R F+ FG I E ++ + G SKG FV F A+ A
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD-GSSKGCAFVKFSSHTEAQAA 72
>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 = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTG--KSKGYGFVTF 64
K FVG + +++R FEQ+G + E ++ D++ +SKG FVTF
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTF 54
Score = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTF 64
K+F+G ++ + ++R F FG I E I+ + G S+G FVTF
Sbjct: 97 KLFIGXISKKCTENDIRVXFSSFGQIEECRILRGPD-GLSRGCAFVTF 143
>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 = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+F+GGL ++++ FG + ++ D TG SKGY F + D +A
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 157
Query: 77 PN 78
N
Sbjct: 158 LN 159
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 14 TFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDK--NTGKSKGYGFVTFRDPESAR 71
T +K+ V + ++ E+R F FG+ L+ V + K TG +G+GFV F + A+
Sbjct: 14 TTSKILVRNIPFQANQREIRELFSTFGE-LKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 72
Query: 72 RA 73
+A
Sbjct: 73 KA 74
>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 = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFG--DILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
V+VG +W T +++ + G D++E ++ G+SKGY V S + +
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 76 -NPNPVIDGRRANC 88
P V++G + +
Sbjct: 118 LLPGKVLNGEKVDV 131
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.0 bits (79), Expect = 0.038, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 26/50 (52%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRD 66
K+F+GGL ++++ FG + ++ D TG SKGY F + D
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 52
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN 76
K+F+GGL ++++ FG + ++ D TG SKGY F + D +A
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 155
Query: 77 PN 78
N
Sbjct: 156 LN 157
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 9/74 (12%)
Query: 2 AYPHYRSQFGDTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGF 61
++ H+R + G+ + T++FV + E+ F FG + E I++ G+ F
Sbjct: 19 SHMHHRQE-GELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAF 69
Query: 62 VTFRDPESARRACD 75
V F + ESA +A +
Sbjct: 70 VEFEEAESAAKAIE 83
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 12/73 (16%)
Query: 20 VGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDN--- 76
V L+ E + + F QFG + +AV++ D + G++ G GFV F AR+A +
Sbjct: 101 VKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERCGD 159
Query: 77 --------PNPVI 81
P PVI
Sbjct: 160 GAFLLTTTPRPVI 172
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 9/57 (15%)
Query: 11 GDTTFT---KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTF 64
G+ T+T ++FVG L + E+ +R FE++G+ E I D +G+GF+
Sbjct: 15 GEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRL 65
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 9/78 (11%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
TK+ VG ++ +E+R FE++G ++E I+ D Y FV E A A
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIR 62
Query: 76 N-PNPVIDGRRANCNIAS 92
N G+R + +++
Sbjct: 63 GLDNTEFQGKRMHVQLST 80
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 19 FVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNPN 78
+VG L + T ++ F+ I ++ DK+T K KG+ +V F + +S + A
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDG 77
Query: 79 PVIDGRRANCNIA 91
++ R +IA
Sbjct: 78 ALLGDRSLRVDIA 90
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 16 TKVFVGGLAWETPT-EEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
+++F+G L + + E++ R F +G I++ I+ KN +GF+ F +P+S R A
Sbjct: 11 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ---INIKN-----AFGFIQFDNPQSVRDAI 62
Query: 75 D 75
+
Sbjct: 63 E 63
>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 = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV G+ E E++ F ++G+I + D+ TG KGY V + + A+ A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 78 N 78
N
Sbjct: 70 N 70
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 39 FGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
FG + ++ + TG+SKGYGF + +SA RA
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 39 FGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
FG + ++ + TG+SKGYGF + +SA RA
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV G+ E E++ F ++G+I + D+ TG KGY V + + A+ A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 78 N 78
N
Sbjct: 70 N 70
>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 = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV G+ E E++ F ++G+I + D+ TG KGY V + + A+ A +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 78 N 78
N
Sbjct: 72 N 72
>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 = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 39 FGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
FG + ++ + TG+SKGYGF + +SA RA
Sbjct: 117 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>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 = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV G+ E E++ F ++G+I + D+ TG KGY V + + A+ A +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 78 N 78
N
Sbjct: 86 N 86
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 16 TKVFVGGLAWETPT-EEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
+++F+G L + + E++ R F +G I++ I+ KN +GF+ F +P+S R A
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ---INIKNA-----FGFIQFDNPQSVRDAI 74
Query: 75 D 75
+
Sbjct: 75 E 75
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV G+ E E++ F ++G+I + D+ TG KGY V + + A+ A +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 78 N 78
N
Sbjct: 70 N 70
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 16 TKVFVGGLAWETPT-EEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
+++F+G L + + E++ R F +G I++ I+ KN +GF+ F +P+S R A
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ---INIKNA-----FGFIQFDNPQSVRDAI 74
Query: 75 D 75
+
Sbjct: 75 E 75
>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 = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV G+ E E++ F ++G+I + D+ TG KGY V + + A+ A +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 78 N 78
N
Sbjct: 85 N 85
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+++ L ++ EEM F ++G I + I NT +++G +V + D A+ ACD
Sbjct: 15 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACD 69
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+ + L++ E ++ FE+ + + GKSKGY F+ F E A+ A ++
Sbjct: 18 LVLSNLSYSATEETLQEVFEK----ATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSC 73
Query: 78 NP-VIDGR 84
N I+GR
Sbjct: 74 NKREIEGR 81
>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 = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+++ L ++ EEM F ++G I + I NT +++G +V + D A+ ACD
Sbjct: 21 LYIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACD 75
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 31.6 bits (70), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 8/72 (11%)
Query: 12 DTTFTKVFVGGLAWETPTEEMRRYFEQFGDILEAV--------IISDKNTGKSKGYGFVT 63
D+ + ++V GL +++ +F+Q G + I DK TGK KG V+
Sbjct: 12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVS 71
Query: 64 FRDPESARRACD 75
+ DP +A+ A +
Sbjct: 72 YEDPPTAKAAVE 83
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 31.6 bits (70), Expect = 0.48, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 16 TKVFVGGLAWETPT-EEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
+++F+G L + + E++ R F +G I++ I+ KN +GF+ F +P+S R A
Sbjct: 3 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ---INIKN-----AFGFIQFDNPQSVRDAI 54
Query: 75 D 75
+
Sbjct: 55 E 55
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRD 66
V++ GL +E + + +F++ + +++ I+ GK+ G GFV FR+
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRN 76
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV LA E + + F +FG + + K K Y FV F D +A +A D
Sbjct: 18 LFVRNLATTVTEEILEKSFSEFGKL--------ERVKKLKDYAFVHFEDRGAAVKAMDEM 69
Query: 78 N 78
N
Sbjct: 70 N 70
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 31.2 bits (69), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 6/63 (9%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKS----KGYGFVTFRDPESARR 72
KVFVGGL + +E+ F +FG ++ V K KS KGY F+ F++ S +
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLV--VDWPHKAESKSYFPPKGYAFLLFQEESSVQA 67
Query: 73 ACD 75
D
Sbjct: 68 LID 70
>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 = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
+ + L ++ EEM F ++G I + I NT +++G +V + D A+ ACD
Sbjct: 21 LMIRNLPYKITAEEMYDIFGKYGPIRQ---IRVGNTPETRGTAYVVYEDIFDAKNACD 75
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 27/65 (41%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L + E+ F G I I+ D TG S GY FV F ++RA
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 76 NPNPV 80
N +
Sbjct: 64 VLNGI 68
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 30.8 bits (68), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
++VG L++ T E++ F + GDI + ++ DK + G+ FV + +R +N
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY----YSRADAENA 97
Query: 78 NPVIDGRRANCNI 90
I+G R + I
Sbjct: 98 MRYINGTRLDDRI 110
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACDNP 77
+FV + E +E++ F +G+I + D+ TG SKGY V + + A A +
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 78 N 78
N
Sbjct: 89 N 89
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 27/65 (41%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L + E+ F G I I+ D TG S GY FV F ++RA
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 76 NPNPV 80
N +
Sbjct: 64 VLNGI 68
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 17 KVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
K+F+ GL + EE+ + G + + +++++ GK KG +V + + A +A
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQA 74
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRA 73
+FVG L + + +F + + TG SKGYGFV F D +RA
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRA 67
>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 = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 18 VFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTF 64
+FV + E +E++ F +G+I + D+ TG SKGY V +
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEY 121
>pdb|2UXQ|A Chain A, Isocitrate Dehydrogenase From The Psychrophilic Bacterium
Desulfotalea Psychrophila: Biochemical Properties And
Crystal Structure Analysis
pdb|2UXQ|B Chain B, Isocitrate Dehydrogenase From The Psychrophilic Bacterium
Desulfotalea Psychrophila: Biochemical Properties And
Crystal Structure Analysis
pdb|2UXQ|C Chain C, Isocitrate Dehydrogenase From The Psychrophilic Bacterium
Desulfotalea Psychrophila: Biochemical Properties And
Crystal Structure Analysis
pdb|2UXQ|D Chain D, Isocitrate Dehydrogenase From The Psychrophilic Bacterium
Desulfotalea Psychrophila: Biochemical Properties And
Crystal Structure Analysis
pdb|2UXR|A Chain A, Complex With Isocitrate And The Protein Isocitrate
Dehydrogenase From The Psychrophilic Bacterium
Desulfotalea Psychrophila
pdb|2UXR|B Chain B, Complex With Isocitrate And The Protein Isocitrate
Dehydrogenase From The Psychrophilic Bacterium
Desulfotalea Psychrophila
pdb|4AOV|A Chain A, Dpidh-Nadp. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
Length = 402
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 138 SVIYQPFGYPTYTPDYGYHQPQYYHQMYG--TTSTPMGSPYYYGYSLQS 184
SV+ P+GY Y +G Q YY + G T++ P+ Y + +L+
Sbjct: 290 SVLVSPYGYFEYEAAHGTVQRHYYQHLKGERTSTNPVALIYAWTGALRK 338
>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 = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 26/65 (40%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRACD 75
T + V L + E+ F G I I D TG S GY FV F ++RA
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIK 74
Query: 76 NPNPV 80
N +
Sbjct: 75 VLNGI 79
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 16 TKVFVGGLAWETPTEEMRRYFEQFGDILEAVIISDKNTGKSKGYGFVTFRDPESARRAC 74
T+++VGGL T + R F++FG I D G S + ++ + ++A+ AC
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTI----DHVKGDS--FAYIQYESLDAAQAAC 70
>pdb|2M4M|A Chain A, Solution Structure Of The Rrm Domain Of The Hypothetical
Protein Cagl0m09691g From Candida Glabrata
Length = 124
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 26 ETPTEEMRRYFEQFGDILEAV--IISDKNTGKSKGYGF 61
E T+++ YF QFG+ILE + + D T ++ GY F
Sbjct: 20 EAITKQILAYFAQFGEILEDLESELGDTETMRTPGYFF 57
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
0.313 0.131 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,758,425
Number of Sequences: 62578
Number of extensions: 313642
Number of successful extensions: 707
Number of sequences better than 100.0: 161
Number of HSP's better than 100.0 without gapping: 131
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 240
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)