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= 025468
(252 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 = 111 bits (278), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 52/89 (58%), Positives = 71/89 (79%), Gaps = 1/89 (1%)
Query: 15 DTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK 74
DTT TK+FVGGL + T +LR++F+ +GDI EAV+I+D+ TG+S+GYGFVT + AA+
Sbjct: 14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
Query: 75 KACEDATPIINGRRANCNLASLGARRPRS 103
+AC+D PII+GR+AN NLA LGA +PRS
Sbjct: 74 RACKDPNPIIDGRKANVNLAYLGA-KPRS 101
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 46/73 (63%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ K+FVGGL W T +E LR +F +YG++++ VI+ DK T +S+G+GFV FK+P
Sbjct: 16 IGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVL 75
Query: 78 EDATPIINGRRAN 90
++GR +
Sbjct: 76 ASRPHTLDGRNID 88
>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 = 69.7 bits (169), Expect = 1e-12, Method: Composition-based stats.
Identities = 26/67 (38%), Positives = 48/67 (71%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+F+GGL+W+T ++ L+++F K+G++++ + D +TGRS+G+GFV FKE E+ K +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 81 TPIINGR 87
+NG+
Sbjct: 62 EHKLNGK 68
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 68.2 bits (165), Expect = 4e-12, Method: Composition-based stats.
Identities = 26/56 (46%), Positives = 42/56 (75%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKK 75
K+F+GGL+W+T +E LRE+F ++G++ E +++ D LT RS+G+GFVTF + K
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDK 57
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 42/57 (73%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
K+F+GGL+W+T +E LRE+F ++G++ E +++ D LT RS+G+GFVTF + K
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 83
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/68 (45%), Positives = 47/68 (69%), Gaps = 4/68 (5%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K+FVGGL+++T ++L + F KYG I E V++ D+ T RS+G+GFVTF+ + AK D
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAK----D 69
Query: 80 ATPIINGR 87
A +NG+
Sbjct: 70 AMMAMNGK 77
>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 = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 47/68 (69%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K FVGGL+W+T ++ L+++F K+G++++ I D TGRS+G+GF+ FK+ + +K +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 80 ATPIINGR 87
++GR
Sbjct: 73 KEHRLDGR 80
>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 = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 47/68 (69%), Gaps = 1/68 (1%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K+F+GGL W+T + LRE+F KYG + + I+ D TGRS+G+GF++F++P + + +
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK- 63
Query: 80 ATPIINGR 87
I++G+
Sbjct: 64 TQHILDGK 71
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 43/76 (56%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K+FVGG+ + + E F ++G I++A ++ DK TG+S+G+GFVT+ +A + C++
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN 148
Query: 80 ATPIINGRRANCNLAS 95
R+ A
Sbjct: 149 KFIDFKDRKIEIKRAE 164
>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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 45/70 (64%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
L K+F+GGL++ET E+LR HF+++G + + V++ D T RS+G+GFVT+ E A
Sbjct: 13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Query: 78 EDATPIINGR 87
++GR
Sbjct: 73 NARPHKVDGR 82
Score = 60.8 bits (146), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 56/96 (58%), Gaps = 3/96 (3%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
T+ K+FVGG+ +T LR++F++YG I I++D+ +G+ +G+ FVTF + ++ K
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Query: 77 CEDATPIINGRRANCNLASLGARRPRSASATPPQQG 112
+NG NC + +++ ASA+ Q+G
Sbjct: 163 VIQKYHTVNGH--NCEVRKALSKQE-MASASSSQRG 195
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 61.6 bits (148), Expect = 4e-10, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 46/74 (62%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+FVGGL+ T E ++ +F+++G + +A+++ DK T R +G+GFVTF+ + +K CE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 81 TPIINGRRANCNLA 94
IN + 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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 45/70 (64%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
L K+F+GGL++ET E+LR HF+++G + + V++ D T RS+G+GFVT+ E A
Sbjct: 12 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 71
Query: 78 EDATPIINGR 87
++GR
Sbjct: 72 NARPHKVDGR 81
Score = 60.5 bits (145), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 56/96 (58%), Gaps = 3/96 (3%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
T+ K+FVGG+ +T LR++F++YG I I++D+ +G+ +G+ FVTF + ++ K
Sbjct: 102 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 161
Query: 77 CEDATPIINGRRANCNLASLGARRPRSASATPPQQG 112
+NG NC + +++ ASA+ Q+G
Sbjct: 162 VIQKYHTVNGH--NCEVRKALSKQE-MASASSSQRG 194
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 45/70 (64%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
L K+F+GGL++ET E+LR HF+++G + + V++ D T RS+G+GFVT+ E A
Sbjct: 14 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 73
Query: 78 EDATPIINGR 87
++GR
Sbjct: 74 NARPHKVDGR 83
Score = 60.5 bits (145), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 56/96 (58%), Gaps = 3/96 (3%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
T+ K+FVGG+ +T LR++F++YG I I++D+ +G+ +G+ FVTF + ++ K
Sbjct: 104 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 163
Query: 77 CEDATPIINGRRANCNLASLGARRPRSASATPPQQG 112
+NG NC + +++ ASA+ Q+G
Sbjct: 164 VIQKYHTVNGH--NCEVRKALSKQE-MASASSSQRG 196
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 45/70 (64%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
L K+F+GGL++ET E+LR HF+++G + + V++ D T RS+G+GFVT+ E A
Sbjct: 13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 72
Query: 78 EDATPIINGR 87
++GR
Sbjct: 73 NARPHKVDGR 82
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
T+ K+FVGG+ +T LR++F++YG I I++D+ +G+ +G+ FVTF + ++ K
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Query: 77 CEDATPIINGRRANCNL 93
+NG NC +
Sbjct: 163 VIQKYHTVNGH--NCEV 177
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 45/70 (64%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
L K+F+GGL++ET E+LR HF+++G + + V++ D T RS+G+GFVT+ E A
Sbjct: 6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 65
Query: 78 EDATPIINGR 87
++GR
Sbjct: 66 NARPHKVDGR 75
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 52/90 (57%), Gaps = 3/90 (3%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
T+ K+FVGG+ +T LR++F++YG I I++D+ +G+ +G+ FVTF + ++ K
Sbjct: 96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 155
Query: 77 CEDATPIINGRRANCNL-ASLGARRPRSAS 105
+NG NC + +L + SAS
Sbjct: 156 VIQKYHTVNGH--NCEVRKALSKQEMASAS 183
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 45/70 (64%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
L K+F+GGL++ET E+LR HF+++G + + V++ D T RS+G+GFVT+ E A
Sbjct: 11 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM 70
Query: 78 EDATPIINGR 87
++GR
Sbjct: 71 NARPHKVDGR 80
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
T+ K+FVGG+ +T LR++F++YG I I++D+ +G+ +G+ FVTF + ++ K
Sbjct: 101 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 160
Query: 77 CEDATPIINGRRANCNL 93
+NG NC +
Sbjct: 161 VIQKYHTVNGH--NCEV 175
>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 = 57.8 bits (138), Expect = 6e-09, Method: Composition-based stats.
Identities = 25/61 (40%), Positives = 39/61 (63%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ K+FVGGL+ +TP E +RE+F +G++ + D T + +G+ F+TFKE E KK
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
Query: 78 E 78
E
Sbjct: 61 E 61
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 57.4 bits (137), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
+ + V GL W+T + L+E+F +G++L + D TG SKG+GFV F E E K
Sbjct: 16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 75
Query: 79 DATPIINGRRANCNL 93
+I+GR +C L
Sbjct: 76 -QRHMIDGRWCDCKL 89
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 38/50 (76%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF 67
K+F+GGL++ET E+LR +++++G + + V++ D + RS+G+GFVTF
Sbjct: 27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 40/65 (61%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
G + + ++VG L + + LR F+ +G I V++ D TGRSKGYGF+TF + E A
Sbjct: 1 GSSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECA 60
Query: 74 KKACE 78
++A E
Sbjct: 61 RRALE 65
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/59 (44%), Positives = 37/59 (62%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
+++VG L + + LR F+ +G I ++ D TGRSKGYGF+TF + E AKKA E
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 44/68 (64%), Gaps = 5/68 (7%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K+F+GGL ET + L+ F K+G I E ++I D+ T +S+G+ F+TF+ P AK A +D
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKD 67
Query: 80 ATPIINGR 87
+NG+
Sbjct: 68 ----MNGK 71
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 55.8 bits (133), Expect = 2e-08, Method: Composition-based stats.
Identities = 24/58 (41%), Positives = 37/58 (63%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
+FVGGL+ +TP E +RE+F +G++ + D T + +G+ F+TFKE E KK E
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 5/94 (5%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
K+FVGG+ LRE+F K+G + E V+I D R +G+GF+TF++ ++ +A
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN 70
Query: 79 DATPIINGRRANCNLASLGARRPRSASATPPQQG 112
I G++ A PR + ++ P G
Sbjct: 71 MHFHDIMGKKVEVKRAE-----PRDSKSSGPSSG 99
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 45/77 (58%), Gaps = 8/77 (10%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPE---AAKKAC 77
+FV GL+ +T E L+E FD + A I++D+ TG SKG+GFV F E AAK+A
Sbjct: 18 LFVKGLSEDTTEETLKESFDGS---VRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM 74
Query: 78 EDATPIINGRRANCNLA 94
ED I+G + + A
Sbjct: 75 EDGE--IDGNKVTLDWA 89
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 23 VGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDATP 82
V GL+ T LRE F KYG I + I+ D+ + RS+G+ FV F+ + AK+A E A
Sbjct: 51 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 110
Query: 83 I-INGRRANCNLA 94
+ ++GRR + +
Sbjct: 111 MELDGRRIRVDFS 123
>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 = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 34/100 (34%), Positives = 51/100 (51%), Gaps = 4/100 (4%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED- 79
VFVG L+ E E ++ F +G I +A ++ D TG+SKGYGFV+F A+ A +
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 80 ATPIINGRRANCNLASLGARRPRSASATPPQQGSNVGPRS 119
+ GR+ N A+ R+P + +T GP S
Sbjct: 78 GGQWLGGRQIRTNWAT---RKPPAPKSTYESNTKQSGPSS 114
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 23 VGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDATP 82
V GL+ T LRE F KYG I + I+ D+ + RS+G+ FV F+ + AK+A E A
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 76
Query: 83 I-INGRRANCNLA 94
+ ++GRR + +
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 = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 23 VGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDATP 82
V GL+ T LRE F KYG I + I+ D+ + RS+G+ FV F+ + AK+A E A
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 83 I-INGRRANCNLA 94
+ ++GRR + +
Sbjct: 80 MELDGRRIRVDFS 92
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/67 (41%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 23 VGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDATP 82
V GL+ T LRE F KYG I + I+ D+ + RS+G+ FV F+ + AK+A E A
Sbjct: 20 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG 79
Query: 83 I-INGRR 88
+ ++GRR
Sbjct: 80 MELDGRR 86
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 4/73 (5%)
Query: 15 DTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK 74
D +L VFVG + +E E L++ F + G ++ ++ D+ TG+ KGYGF +++ E A
Sbjct: 5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETAL 64
Query: 75 KACEDATPIINGR 87
A + +NGR
Sbjct: 65 SAMRN----LNGR 73
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 4/87 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L +E R F G+I ++ DK+TG+S GYGFV + +P+ A+KA
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 79 DATPIINGRRANCNLASLGARRPRSAS 105
+NG R + RP SAS
Sbjct: 63 ----TLNGLRLQTKTIKVSYARPSSAS 85
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 41/69 (59%), Gaps = 6/69 (8%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF-KEPEAAKKACED 79
++V GL ++ L + F +YG I+ + I+ D++TG S+G GF+ F K EA E+
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEA-----EE 145
Query: 80 ATPIINGRR 88
A +NG++
Sbjct: 146 AIKGLNGQK 154
>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 = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
VFVGG+ +R F +YG + E II+D+ TG SKGYGFV+F +K E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF-KEPEAAKKACED 79
VFVG L+ E E ++ F +G I +A ++ D TG+SKGYGFV+F + +A
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 80 ATPIINGRRANCNLASLGARRP 101
+ GR+ N A+ R+P
Sbjct: 78 GGQWLGGRQIRTNWAT---RKP 96
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 41/87 (47%), Gaps = 4/87 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L ++ + F GDI ++ DK+TG+S GYGFV + +P A KA
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 79 DATPIINGRRANCNLASLGARRPRSAS 105
+NG + + RP SAS
Sbjct: 65 ----TLNGLKLQTKTIKVSYARPSSAS 87
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
VFVGG+ +R F +YG + E II+D+ TG SKGYGFV+F +K E
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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
VFVGG+ +R F +YG + E II+D+ TG SKGYGFV+F +K E
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE 68
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 44/75 (58%), Gaps = 3/75 (4%)
Query: 35 LREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE--DATPIINGRRANCN 92
LR+ F++YG I I+ D+ T +S+GYGFV F+ +A++A + I+N +R
Sbjct: 59 LRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILN-KRLKVA 117
Query: 93 LASLGARRPRSASAT 107
LA+ G +RP A A
Sbjct: 118 LAASGHQRPGIAGAV 132
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 41/87 (47%), Gaps = 4/87 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L ++ + F GDI ++ DK+TG+S GYGFV + +P A KA
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAIN 64
Query: 79 DATPIINGRRANCNLASLGARRPRSAS 105
+NG + + RP SAS
Sbjct: 65 ----TLNGLKLQTKTIKVSYARPSSAS 87
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 40/69 (57%), Gaps = 6/69 (8%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF-KEPEAAKKACED 79
++V GL ++ + + F +YG I+ + I+ D+ TG S+G GF+ F K EA E+
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEA-----EE 147
Query: 80 ATPIINGRR 88
A +NG++
Sbjct: 148 AIKGLNGQK 156
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+T + V L + T + LR F+KYG + + I D+ T S+G+ FV F + A+ A
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Query: 78 EDAT-PIINGRRANCNLASLG 97
+ +++GR +A G
Sbjct: 107 DAMDGAVLDGRELRVQMARYG 127
>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 = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 41/71 (57%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+++V+VG + +E + +R+ F +G I + D +T + KG+ FV ++ PEAA+ A
Sbjct: 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 87
Query: 78 EDATPIINGRR 88
E ++ G R
Sbjct: 88 EQMNSVMLGGR 98
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 44/92 (47%), Gaps = 11/92 (11%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+++V + + + ++ F+ +G I A + D TG+ KGYGF+ +++ ++++ A
Sbjct: 125 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAV 184
Query: 78 EDATPIINGRRANCNLASLGARRPRSASATPP 109
++ NL LG + R A P
Sbjct: 185 -----------SSMNLFDLGGQYLRVGKAVTP 205
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 3/82 (3%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+T + V L + T + LR F+KYG + + I D+ T S+G+ FV F + A+ A
Sbjct: 70 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 129
Query: 78 EDATP--IINGRRANCNLASLG 97
DA +++GR +A G
Sbjct: 130 -DAMDGAVLDGRELRVQMARYG 150
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/112 (30%), Positives = 57/112 (50%), Gaps = 11/112 (9%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+F+ L +AL + F +G+IL ++ D+ SKGYGFV F+ EAA++A E
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 65
Query: 81 T-PIINGRRANCNLASLGARRPRSAS-ATPPQQGSNV-----GPRSTSSAPA 125
++N R+ + +R+ R A ++ +NV GP ST +A +
Sbjct: 66 NGMLLNDRKV--FVGRFKSRKEREAELGARAKEFTNVYIKNFGPGSTRAAAS 115
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 40/71 (56%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ +V+VG + +E + +R+ F +G I + D +T + KG+ FV ++ PEAA+ A
Sbjct: 13 MCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLAL 72
Query: 78 EDATPIINGRR 88
E ++ G R
Sbjct: 73 EQMNSVMLGGR 83
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/92 (21%), Positives = 43/92 (46%), Gaps = 11/92 (11%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+++V + + + ++ F+ +G I + D TG+ KGYGF+ +++ ++++ A
Sbjct: 110 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 169
Query: 78 EDATPIINGRRANCNLASLGARRPRSASATPP 109
++ NL LG + R A P
Sbjct: 170 -----------SSMNLFDLGGQYLRVGKAVTP 190
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T ++V L + L F KYG I++ I+ DKLTGR +G FV + + E A++A
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Query: 79 DATPII 84
+I
Sbjct: 150 ALNNVI 155
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 51/102 (50%), Gaps = 12/102 (11%)
Query: 11 GQFGDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEP 70
G G + + K+F+G L E + +R F++YG +LE II K YGFV ++
Sbjct: 1 GSSGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIED- 51
Query: 71 EAAKKACEDATPIINGRRANCNLASLGARRPRSASATPPQQG 112
K A EDA ++ + + ++ A + +S +++ P G
Sbjct: 52 ---KTAAEDAIRNLHHYKLHGVNINVEASKNKSKASSGPSSG 90
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+F+ L +AL + F +G+IL ++ D+ SKGYGFV F+ EAA++A E
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 163
Query: 81 T-PIINGRRANCNLASLGARRPRSAS 105
++N R+ + +R+ R A
Sbjct: 164 NGMLLNDRKV--FVGRFKSRKEREAE 187
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ ++VG L + L E F G IL + D +T RS GY +V F++P A++A
Sbjct: 15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 74
Query: 78 EDAT-PIINGR 87
+ +I G+
Sbjct: 75 DTMNFDVIKGK 85
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+F+ L +AL + F +G+IL ++ D+ SKGYGFV F+ EAA++A E
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 158
Query: 81 T-PIINGRRANCNLASLGARRPRSAS 105
++N R+ + +R+ R A
Sbjct: 159 NGMLLNDRKV--FVGRFKSRKEREAE 182
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ ++VG L + L E F G IL + D +T RS GY +V F++P A++A
Sbjct: 10 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 69
Query: 78 EDAT-PIINGR 87
+ +I G+
Sbjct: 70 DTMNFDVIKGK 80
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 15 DTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK 74
D K+F+G + + L+ F+++G I E ++ D+ TG KG F+T+ E E+A
Sbjct: 10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESAL 69
Query: 75 KA 76
KA
Sbjct: 70 KA 71
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The
Second Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T ++V L + L F KYG I++ I+ DKLTGR +G FV + + E A++A
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
Query: 79 DATPII 84
+I
Sbjct: 74 ALNNVI 79
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+FVG L E LR F + L ++ D TG S+GYGFV+F + A+ A +
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 81 T-PIINGRRANCNLAS 95
+NGR N A+
Sbjct: 150 QGQDLNGRPLRINWAA 165
>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 = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T ++V L + L F KYG I++ I+ DKLTGR +G FV + + E A++A
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Query: 79 DATPII 84
+I
Sbjct: 161 ALNNVI 166
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 44.3 bits (103), Expect = 7e-05, Method: Composition-based stats.
Identities = 29/82 (35%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
G TT ++VGGLA E + L F +GDI + I D T + +G+ FV F+ E A
Sbjct: 1 GSTTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 60
Query: 74 KKACEDATPI-INGRRANCNLA 94
A ++ + GR NLA
Sbjct: 61 AAAIDNMNESELFGRTIRVNLA 82
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 31/56 (55%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
+++ GL T + L + YG I+ I DK T + KGYGFV F P AA+KA
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 45/86 (52%), Gaps = 5/86 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+F+ L +AL + F +G+IL ++ D+ SKGYGFV F+ EAA++A E
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKM 71
Query: 81 T-PIINGRRANCNLASLGARRPRSAS 105
++N R+ + +R+ R A
Sbjct: 72 NGMLLNDRKV--FVGRFKSRKEREAE 95
>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 = 43.5 bits (101), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
+FVG L E LR F + L ++ D TG S+GYGFV+F + A+ A +
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 81 T-PIINGRRANCNLAS 95
+NGR N A+
Sbjct: 64 QGQDLNGRPLRINWAA 79
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 37/69 (53%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
+V+VG + +E + +R+ F +G I D +T + KG+ FV ++ PEAA+ A E
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 80 ATPIINGRR 88
+ G R
Sbjct: 74 XNSVXLGGR 82
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/92 (21%), Positives = 43/92 (46%), Gaps = 11/92 (11%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+++V + + + ++ F+ +G I + D TG+ KGYGF+ +++ ++++ A
Sbjct: 109 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAV 168
Query: 78 EDATPIINGRRANCNLASLGARRPRSASATPP 109
++ NL LG + R A P
Sbjct: 169 -----------SSXNLFDLGGQYLRVGKAVTP 189
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED- 79
VFVG L+ E A+ F +G I +A ++ D TG+SKGYGFV+F A+ A +
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 80 ATPIINGRRANCNLASLGARRP 101
+ GR+ N A+ R+P
Sbjct: 69 GGQWLGGRQIRTNWAT---RKP 87
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 45/94 (47%), Gaps = 5/94 (5%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA-CE 78
++FV L++ + E L + F YG + E D LT + KG+ FVTF PE A KA E
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69
Query: 79 DATPIINGRRANCNLASLGARRPRSASATPPQQG 112
+ GR + L + + AS + P G
Sbjct: 70 VDGQVFQGRMLHV----LPSTIKKEASQSGPSSG 99
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 44/78 (56%), Gaps = 6/78 (7%)
Query: 11 GQFGDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEP 70
G G + ++FV L ++ + L++ F++ G +L A I + G+SKG G V F+ P
Sbjct: 1 GSSGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESP 58
Query: 71 EAAKKACEDATPIINGRR 88
E A++AC ++NG +
Sbjct: 59 EVAERACR----MMNGMK 72
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
V+V L + L F KYG +++ I+ DK T +SKG F+ F + ++A ++
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA----QNC 74
Query: 81 TPIINGRR 88
T IN ++
Sbjct: 75 TRAINNKQ 82
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L ++ LR F G++ A +I DK+ G S GYGFV + K E
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY----VTAKDAE 58
Query: 79 DATPIINGRRANCNLASLGARRPRS 103
A +NG R + RP S
Sbjct: 59 RAINTLNGLRLQSKTIKVSYARPSS 83
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 33/57 (57%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+++ GL ++ + + F ++G I+ + ++ D+ TG S+G F+ F + A++A
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 36/83 (43%), Gaps = 4/83 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L ++ LR F G++ A +I DK+ G S GYGFV + K E
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY----VTAKDAE 60
Query: 79 DATPIINGRRANCNLASLGARRP 101
A +NG R + RP
Sbjct: 61 RAINTLNGLRLQSKTIKVSYARP 83
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L ++ LR F G++ A +I DK+ G S GYGFV + K E
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY----VTAKDAE 58
Query: 79 DATPIINGRRANCNLASLGARRPRS 103
A +NG R + RP S
Sbjct: 59 RAINTLNGLRLQSKTIKVSYARPSS 83
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 33/57 (57%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+++ GL ++ + + F ++G I+ + ++ D+ TG S+G F+ F + A++A
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ ++V L E LR+ F +G I A ++ + GRSKG+GFV F PE A KA
Sbjct: 15 VVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAV 72
Query: 78 EDATPIINGR 87
+ +NGR
Sbjct: 73 TE----MNGR 78
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 8/78 (10%)
Query: 15 DTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK 74
D T+T ++VGGL LR HF ++G+I ++ + + F+ F +AA+
Sbjct: 9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQAAE 62
Query: 75 KACEDA--TPIINGRRAN 90
A E + I+NGRR N
Sbjct: 63 VAAEKSFNKLIVNGRRLN 80
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 31/67 (46%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
V+VG + + + + L HF G I I+ DK +G KGY ++ F E + A
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMD 98
Query: 81 TPIINGR 87
+ GR
Sbjct: 99 ETVFRGR 105
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 15 DTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK 74
D K+FVG + + L+ F+++G I E ++ D+LTG KG F+T+ ++A
Sbjct: 12 DHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSAL 71
Query: 75 KA 76
KA
Sbjct: 72 KA 73
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 36/83 (43%), Gaps = 4/83 (4%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
T + V L ++ LR F G++ A +I DK+ G S GYGFV + K E
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNY----VTAKDAE 75
Query: 79 DATPIINGRRANCNLASLGARRP 101
A +NG R + RP
Sbjct: 76 RAINTLNGLRLQSKTIKVSYARP 98
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 49/107 (45%), Gaps = 13/107 (12%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEA-VIISDKLTGRSKGYGFVTFKEPEA 72
G + + +F+G L E + L + F +G IL+ I+ D TG SKGY F+ F +A
Sbjct: 1 GSSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDA 60
Query: 73 AKKACEDATPIINGRRANCNLASLGARRPRSASATPPQQGSNVGPRS 119
+ A E +NG+ CN RP + S + GP S
Sbjct: 61 SDAAIE----AMNGQYL-CN-------RPITVSYAFKKDSKGSGPSS 95
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 32/57 (56%)
Query: 18 LTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK 74
+ ++VG L + E ++E F ++G + +I D+ T + KG+GFV +E ++
Sbjct: 1 MRNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSE 57
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 16 TTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKK 75
TT ++VGGLA E + L F +GDI + I D T + +G+ FV F+ E A
Sbjct: 10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 69
Query: 76 ACEDATPI-INGRRANCNLA 94
A ++ + GR NLA
Sbjct: 70 AIDNMNESELFGRTIRVNLA 89
>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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 16 TTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKK 75
TT ++VGGLA E + L F +GDI + I D T + +G+ FV F+ E A
Sbjct: 5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 64
Query: 76 ACEDATPI-INGRRANCNLAS 95
A ++ + GR NLA
Sbjct: 65 AIDNMNESELFGRTIRVNLAK 85
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 4/68 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
++V GL ++ + + F +YG I+ + I+ D+ TG S+G GF+ F + + E+A
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDK----RIEAEEA 59
Query: 81 TPIINGRR 88
+NG++
Sbjct: 60 IKGLNGQK 67
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 35 LREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA-TPIINGRRANCNL 93
LR+ F ++G IL+ II ++ SKG+GFVTF+ A +A E ++ GR+ N
Sbjct: 46 LRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNN 103
Query: 94 AS 95
A+
Sbjct: 104 AT 105
>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 = 40.4 bits (93), Expect = 9e-04, Method: Composition-based stats.
Identities = 26/75 (34%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
++VGGLA E + L F +GDI + I D T + +G+ FV F+ E A A ++
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 64
Query: 81 TPI-INGRRANCNLA 94
+ GR NLA
Sbjct: 65 NESELFGRTIRVNLA 79
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 38/64 (59%), Gaps = 2/64 (3%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
G + + +FV L ++ + L++ F++ G +L A I + G+SKG G V F+ PE A
Sbjct: 1 GSSGSSGIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVA 58
Query: 74 KKAC 77
++AC
Sbjct: 59 ERAC 62
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 35 LREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA-TPIINGRRANCNL 93
LR+ F ++G IL+ II ++ SKG+GFVTF+ A +A E ++ GR+ N
Sbjct: 32 LRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNN 89
Query: 94 AS 95
A+
Sbjct: 90 AT 91
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
VFVG L E L E F + G + + I D+ G+ K +GFV FK PE+ A
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDR-EGKPKSFGFVCFKHPESVSY----A 73
Query: 81 TPIINGRR 88
++NG R
Sbjct: 74 IALLNGIR 81
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
+ V L+ +T L+E F +G I + DK TG+SKG+ F++F E A +A
Sbjct: 18 IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 33/68 (48%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
++VG + + E L HF G + I+ DK +G KG+ ++ F + E+ + +
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 68
Query: 81 TPIINGRR 88
+ GR+
Sbjct: 69 ESLFRGRQ 76
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition
In The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 33/59 (55%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
V++G + ++ E + + G ++ ++ D TGRSKGY F+ F++ E++ A +
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 65
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 16 TTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKK 75
TT ++VGGLA E + L F +GDI + I D T + +G+ FV F+ E A
Sbjct: 61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 120
Query: 76 ACEDATPI-INGRRANCNLA 94
A ++ + GR NLA
Sbjct: 121 AIDNMNESELFGRTIRVNLA 140
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 33/68 (48%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
++VG + + E L HF G + I+ DK +G KG+ ++ F + E+ + +
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALD 67
Query: 81 TPIINGRR 88
+ GR+
Sbjct: 68 ESLFRGRQ 75
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 15 DTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTG--RSKGYGFVTFKEPEA 72
D K+FVG + + LRE F++YG + E ++ D+ +SKG FVTF +A
Sbjct: 12 DLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA 71
Query: 73 AKKA 76
A +A
Sbjct: 72 ALEA 75
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 2/81 (2%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
GD T +FV + ++T LR F+ YG I ++ K +G+ +GY F+ ++
Sbjct: 99 GDAFKT-LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDM 157
Query: 74 KKACEDAT-PIINGRRANCNL 93
A + A I+GRR ++
Sbjct: 158 HSAYKHADGKKIDGRRVLVDV 178
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
V+VGGL + L E F + G ++ + D++TG+ +GYGFV F E A A +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 81 TPI-INGRRANCNLAS 95
I + G+ N AS
Sbjct: 78 DMIKLYGKPIRVNKAS 93
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 33/59 (55%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
V++G + ++ E + + G ++ ++ D TGRSKGY F+ F++ E++ A +
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 64
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 46/107 (42%), Gaps = 21/107 (19%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
G + + VFVG + + LRE F +YGD+++ I + + FVTF + + A
Sbjct: 1 GSSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFI-----PKPFRAFAFVTFADDQIA 55
Query: 74 KKAC-EDATPIINGRRANCNLASLGARRPRSASATPPQQGSNVGPRS 119
+ C ED II G + S P+ SN GP S
Sbjct: 56 QSLCGEDL--IIKGISVH-------------ISNAEPKHNSNSGPSS 87
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 33/59 (55%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
V++G + ++ E + + G ++ ++ D TGRSKGY F+ F++ E++ A +
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRN 63
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein 28
Length = 111
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 47/100 (47%), Gaps = 14/100 (14%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
VF+ L++++ EAL E ++GD+ ++ T SKG F F EAA+K C A
Sbjct: 18 VFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQK-CLAA 76
Query: 81 TPI--------INGRRANCNLASLGARRPRSASATPPQQG 112
+ ++GR+ +LA R +A+ P G
Sbjct: 77 ASLEAEGGGLKLDGRQLKVDLAV-----TRDEAASGPSSG 111
>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 = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTG--RSKGYGFVTFKEPEAAKKA 76
K+FVG + + LRE F++YG + E ++ D+ +SKG FVTF +AA +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTG--RSKGYGFVTFKEPEAAKKA 76
K+FVG + + LRE F++YG + E ++ D+ +SKG FVTF +AA +A
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTG---RSKGYGFVTFKEP 70
G + + +F+ L + T E L+ F K G I I K S G+GFV +K+P
Sbjct: 1 GSSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKP 60
Query: 71 EAAKKACED 79
E A+KA +
Sbjct: 61 EQAQKALKQ 69
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 17 TLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRS--KGYGFVTFKEPEAAK 74
T +K+ V + ++ + +RE F +G+ L+ V + K+TG +G+GFV F + AK
Sbjct: 14 TTSKILVRNIPFQANQREIRELFSTFGE-LKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 72
Query: 75 KA 76
KA
Sbjct: 73 KA 74
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 5/67 (7%)
Query: 11 GQFGDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEP 70
G+ G T VFV L ++ + L+E F G ++ A I+ DK G+S+G G VTF++
Sbjct: 12 GRLGST----VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQS 66
Query: 71 EAAKKAC 77
A +A
Sbjct: 67 IEAVQAI 73
>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 = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 51/115 (44%), Gaps = 11/115 (9%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
++VG L++ T E + E F K GDI + ++ DK+ + G+ FV + ++ E+A
Sbjct: 42 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY----YSRADAENA 97
Query: 81 TPIINGRRANCNLASLGARRPRSASATPPQQGSNVGPRSTSSAPANHVQWYYPAG 135
ING R L R R+ ++G G + + + Y AG
Sbjct: 98 MRYINGTR-------LDDRIIRTDWDAGFKEGRQYGRGRSGGQVRDEYRQDYDAG 145
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
+F+ L E L F +G+++ A + DK T SK +GFV+F P++A+ A +
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
>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 = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 2/81 (2%)
Query: 14 GDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
GD T +FV + ++T LR F+ YG I ++ K +G+ +GY F+ ++
Sbjct: 99 GDAFKT-LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDM 157
Query: 74 KKACEDAT-PIINGRRANCNL 93
A + A I+GRR ++
Sbjct: 158 HSAYKHADGKKIDGRRVLVDV 178
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTG--RSKGYGFVTFKEPEAAKKA 76
K FVG + + LRE F++YG + E ++ D+ +SKG FVTF +AA +A
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
>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 = 0.015, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 21 VFVGGLAWETPREALREHFDKYG--DILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
+++G L W T E L E G DILE ++ G+SKG+ V EA+ K
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVG-SEASSKKLM 62
Query: 79 DATP 82
D P
Sbjct: 63 DLLP 66
>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2S|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX
pdb|3Q2T|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
pdb|3Q2T|D Chain D, Crystal Structure Of Cfim68 RrmCFIM25RNA COMPLEX
Length = 229
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 21 VFVGGLAWETPREALREHFDKYG--DILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
+++G L W T E L E G DILE ++ G+SKG+ V ++KK +
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 130
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 11/89 (12%)
Query: 16 TTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK- 74
T +++FVG L + E +R+ F+KYG E I D KG+GF+ + A+
Sbjct: 20 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEI 73
Query: 75 -KACEDATPIINGR---RANCNLASLGAR 99
K D P+ + R C+ ASL R
Sbjct: 74 AKVELDNMPLRGKQLRVRFACHSASLTVR 102
>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 = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 1/81 (1%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K+F+GGL + ++E +G + ++ D TG SKGY F + + +A
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 80 ATPI-INGRRANCNLASLGAR 99
+ + ++ AS+GA+
Sbjct: 176 LNGMQLGDKKLLVQRASVGAK 196
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLT-GRSKGYGFVTFKEPEAAKKAC 77
TKV +G L ++ + E F YG I + +++ SKGY +V F+ P+ A+KA
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 78 E 78
+
Sbjct: 65 K 65
>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 = 34.7 bits (78), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFV---TFKEPEAAKKA 76
+FV G+ E E + + F +YG+I + D+ TG KGY V T+KE +AA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
>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 = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFV---TFKEPEAAKKA 76
+FV G+ E E + + F +YG+I + D+ TG KGY V T+KE +AA +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 70
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFV---TFKEPEAAKKA 76
+FV G+ E E + + F +YG+I + D+ TG KGY V T+KE +AA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
>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 = 34.3 bits (77), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFV---TFKEPEAAKK 75
+FV G+ E E + + F +YG+I + D+ TG KGY V T+KE +AA +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 67
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 34.3 bits (77), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF---KEPEAAKKA 76
+FV + E + ++E F YG+I + D+ TG SKGY V + K+ AAK+A
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 87
>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 = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFV---TFKEPEAAKKAC 77
+FV G+ E E + + F +YG+I + D+ TG KGY V T+KE +AA +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 33.9 bits (76), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 36/69 (52%), Gaps = 8/69 (11%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC- 77
+KVFVG + E L++ F +YG++++ I + + FVTF + + A+ C
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVDVFI-----PKPFRAFAFVTFADDKVAQSLCG 66
Query: 78 EDATPIING 86
ED II G
Sbjct: 67 EDL--IIKG 73
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 33.9 bits (76), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
K+FVG L + + +R F+ +G+I E I+ G SKG FV + A+ A
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEAQAA 72
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 33.9 bits (76), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 5/80 (6%)
Query: 23 VGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF---KEPEAAKKACED 79
V L + T ++LR F+KYG + + I + T +G+ FV F ++ + A+ A +
Sbjct: 18 VDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDG 77
Query: 80 ATPIINGRRANCNLASLGAR 99
A ++GR +A G R
Sbjct: 78 AE--LDGRELRVQVARYGRR 95
>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 = 33.9 bits (76), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 11/86 (12%)
Query: 16 TTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK- 74
T +++FVG L + E +R+ F+KYG E I D KG+GF+ + A+
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEI 66
Query: 75 -KACEDATPIINGR---RANCNLASL 96
K D P+ + R C+ ASL
Sbjct: 67 AKVELDNMPLRGKQLRVRFACHSASL 92
>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 = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFV---TFKEPEAAKKA 76
+FV G+ E E + + F +YG+I + D+ TG KGY V T+KE +AA +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 83
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAA 73
VF LA L + F G + + IISD+ + RSKG +V F E ++
Sbjct: 28 VFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSV 80
>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 = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
K+F+GGL + ++E +G + ++ D TG SKGY F + + +A
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 155
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 14/89 (15%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
TK+ VG ++ + LR F++YG ++E I+ D Y FV + E A +A
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIR 62
Query: 79 --DATPIINGRRANCNLASLGARRPRSAS 105
D T G+R + L++ R R+AS
Sbjct: 63 GLDNTE-FQGKRMHVQLST---SRLRTAS 87
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
K+F+GGL + ++E +G + ++ D TG SKGY F + + +A
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACEDA 80
++VG L++ T E + E F K GDI + ++ DK+ + G+ FV + A E+A
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKT-ACGFCFVEYYSRADA----ENA 75
Query: 81 TPIINGRRAN 90
ING R +
Sbjct: 76 MRYINGTRLD 85
>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 = 25/85 (29%), Positives = 39/85 (45%), Gaps = 9/85 (10%)
Query: 16 TTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAK- 74
T ++FVG L + E + F++YG+ E I R +G+GF+ + A+
Sbjct: 20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFI------NRDRGFGFIRLESRTLAEI 73
Query: 75 -KACEDATPIINGRRANCNLASLGA 98
KA D T I+ R A+ GA
Sbjct: 74 AKAELDGT-ILKSRPLRIRFATHGA 97
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 33 EALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
E L + F ++G + +AV++ D GR+ G GFV F A+KA E
Sbjct: 111 ELLEQAFSQFGPVEKAVVVVDD-RGRATGKGFVEFAAKPPARKALE 155
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
V+ GG+A + +R+ F +G I+E + + KGY FV F E+A A
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHA 77
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 19 TKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKAC 77
T+++VGGL T AL FD++G I D + G S + ++ ++ +AA+ AC
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTI----DHVKGDS--FAYIQYESLDAAQAAC 70
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 1/82 (1%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
K+F+GGL + ++E +G + ++ D TG SKGY F + + +A
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 80 ATPI-INGRRANCNLASLGARR 100
+ + ++ AS+GA+
Sbjct: 63 LNGMQLGDKKLLVQRASVGAKN 84
>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 = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTF---KEPEAAKKA 76
+FV + E + ++E F YG+I + D+ TG SKGY V + K+ AAK+A
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 133
>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 = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 10/98 (10%)
Query: 21 VFVGGLAWETPREALREHFDKYG--DILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
V+VG +W T + L + G D++E ++ G+SKGY V + K E
Sbjct: 58 VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 79 DA-TPIINGRRANC------NLASLGAR-RPRSASATP 108
++NG + + NL+ A+ R R P
Sbjct: 118 LLPGKVLNGEKVDVRPATRQNLSQFEAQARKRECVRVP 155
>pdb|1W63|A Chain A, Ap1 Clathrin Adaptor Core
pdb|1W63|C Chain C, Ap1 Clathrin Adaptor Core
pdb|1W63|E Chain E, Ap1 Clathrin Adaptor Core
pdb|1W63|G Chain G, Ap1 Clathrin Adaptor Core
pdb|1W63|I Chain I, Ap1 Clathrin Adaptor Core
pdb|1W63|K Chain K, Ap1 Clathrin Adaptor Core
Length = 618
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 7/55 (12%)
Query: 10 IGQFGDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGF 64
IG++GD + V G E E ++ D+ DILE+V+IS+ T ++GY
Sbjct: 485 IGEYGD-----LLVSGQCEE--EEPIQVTEDEVLDILESVLISNMSTSVTRGYAL 532
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 42 YGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
+G + ++ + TG+SKGYGF + + ++A +A D
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 42 YGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
+G + ++ + TG+SKGYGF + + ++A +A D
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 42 YGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACED 79
+G + ++ + TG+SKGYGF + + ++A +A D
Sbjct: 117 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 154
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 21 VFVGGLAWETPREALREHFDK-YGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA--- 76
+FVG L + L E F K Y ++ D+ TG SKGYGFV F + K+A
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTE 70
Query: 77 CEDATPI 83
C+ A +
Sbjct: 71 CQGAVGL 77
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 6/63 (9%)
Query: 26 LAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFK-EPEAAKKACEDATPII 84
L++ + L+E F+ D LE ++S G+SKG ++ FK E +A K E I
Sbjct: 107 LSFNITEDELKEVFE---DALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEKQGAEI 161
Query: 85 NGR 87
+GR
Sbjct: 162 DGR 164
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFK-EPEAAKKACED 79
+ L++ + L+E F+ D LE ++S G+SKG ++ FK E +A K E
Sbjct: 19 LLAKNLSFNITEDELKEVFE---DALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEK 73
Query: 80 ATPIINGR 87
I+GR
Sbjct: 74 QGAEIDGR 81
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKA 76
+ + L++ E L+E F+K I + G+SKGY F+ F E AK+A
Sbjct: 18 LVLSNLSYSATEETLQEVFEKATFIK----VPQNQNGKSKGYAFIEFASFEDAKEA 69
>pdb|2DNL|A Chain A, Solution Structure Of Rna Binding Domain In Cytoplasmic
Polyadenylation Element Binding Protein 3
Length = 114
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 7/76 (9%)
Query: 20 KVFVGGLAWETPREALREHFDKYGDILEAVIISDKLTGRS----KGYGFVTFKEPEAAKK 75
KVFVGGL + + + F ++G ++ V K +S KGY F+ F+E E++ +
Sbjct: 10 KVFVGGLPPDIDEDEITASFRRFGPLV--VDWPHKAESKSYFPPKGYAFLLFQE-ESSVQ 66
Query: 76 ACEDATPIINGRRANC 91
A DA +G+ C
Sbjct: 67 ALIDACLEEDGKLYLC 82
>pdb|3O0R|B Chain B, Crystal Structure Of Nitric Oxide Reductase From
Pseudomonas Aeruginosa In Complex With Antibody Fragment
Length = 465
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 26/64 (40%), Gaps = 9/64 (14%)
Query: 112 GSNVGPRSTSSAPANHVQWYYPAGTPATPFHHHQHHQAVPFYGYSPTCIATDVSYNQPKL 171
G+ V + AP N YY GT T H H FYG + T +SY P+L
Sbjct: 321 GAGVWGFMHTLAPVN----YYTHGTQLTAAHGHM-----AFYGAYAMIVMTIISYAMPRL 371
Query: 172 SYTG 175
G
Sbjct: 372 RGIG 375
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAV--------IISDKLTGRSKGYGFVTFKEPEA 72
+FV GL E++ ++F + G I + +D+ TG+ KG V+F +P +
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 75
Query: 73 AKKACE 78
AK A +
Sbjct: 76 AKAAID 81
>pdb|2CPY|A Chain A, Solution Structure Of Rna Binding Domain 3 In Rna Binding
Motif Protein 12
Length = 114
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 56 TGRSKGYGFVTFKEPEAAKKACEDATPIINGRRANCNLASLGARRPRSASATPPQQGSNV 115
G+ G V FK + A+K+ +NGR A ++ +L R PP QG +
Sbjct: 53 NGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTL--EDMREIEKNPPAQGKS- 109
Query: 116 GPRS 119
GP S
Sbjct: 110 GPSS 113
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 21 VFVGGLAWETPREALREHFDKYGDILEAV--------IISDKLTGRSKGYGFVTFKEPEA 72
+FV GL E++ ++F + G I + +D+ TG+ KG V+F +P +
Sbjct: 10 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPS 69
Query: 73 AKKACE 78
AK A +
Sbjct: 70 AKAAID 75
>pdb|1PEW|A Chain A, High Resolution Crystal Structure Of Jto2, A Mutant Of The
Non- Amyloidogenic Lamba6 Light Chain, Jto
pdb|1PEW|B Chain B, High Resolution Crystal Structure Of Jto2, A Mutant Of The
Non- Amyloidogenic Lamba6 Light Chain, Jto
Length = 109
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 47/108 (43%), Gaps = 11/108 (10%)
Query: 100 RPRSASATPPQQGSNVGPRSTSSAPANHVQWYYPAGTPATP-FHHHQHHQAVP--FYGYS 156
+P S S +P + + RS+ + +N+VQWY P T + +Q VP F G
Sbjct: 6 QPHSVSESPGKTVTISCTRSSGNIASNYVQWYQQRSAPITVIYEDNQRPSGVPDRFAG-- 63
Query: 157 PTCIATDVSYNQPKLSYTGGSYVN--GHFPQMYPGQPIVGATNTLMPI 202
+ D S N L+ +G + ++ Q Y + +V T + +
Sbjct: 64 ----SIDRSSNSASLTISGLKTEDEADYYCQSYDARNVVFGGGTRLTV 107
>pdb|2DIS|A Chain A, Solution Structure Of The Rrm Domain Of Unnamed Protein
Product
Length = 109
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 11 GQFGDTTLTKVFVGGLAWETPREALREHFDKYGDILEAVII----SDKLTGRSKGYGFVT 66
G G + ++F+GG+ RE + E K + + VI+ +DK+ +++G+ FV
Sbjct: 1 GSSGSSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKM--KNRGFAFVE 58
Query: 67 FKEPEAAKKACEDATP 82
++ AA A P
Sbjct: 59 YESHRAAAMARRKLMP 74
>pdb|2FTP|A Chain A, Crystal Structure Of Hydroxymethylglutaryl-Coa Lyase From
Pseudomonas Aeruginosa
Length = 302
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 33/83 (39%), Gaps = 12/83 (14%)
Query: 13 FGDTTLTKVFVGGLAWETPREALREHF-DKYGD--------ILEAVIISDKLTGRSKGYG 63
G T+ + +A E PRE L HF D YG +LE + + D G G
Sbjct: 184 VGTAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYASLLEGIAVFDSSVA---GLG 240
Query: 64 FVTFKEPEAAKKACEDATPIING 86
+ + A ED ++NG
Sbjct: 241 GCPYAKGATGNVASEDVLYLLNG 263
>pdb|2W0K|A Chain A, Crystal Structure Of The Recombinant Variable Domain 6jal2
pdb|2W0K|B Chain B, Crystal Structure Of The Recombinant Variable Domain 6jal2
Length = 111
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 100 RPRSASATPPQQGSNVGPRSTSSAPANHVQWY--YPAGTPATP-FHHHQHHQAVP 151
+P S S +P + + RS+ S +N+VQWY P +P T + +Q VP
Sbjct: 6 QPHSVSESPGKTVTISCTRSSGSIASNYVQWYQQRPGSSPTTVIYEDNQRPSGVP 60
>pdb|2W0L|A Chain A, Crystal Structure Of The Mutant H8p From The Recombinant
Variable Domain 6jal2
pdb|2W0L|B Chain B, Crystal Structure Of The Mutant H8p From The Recombinant
Variable Domain 6jal2
pdb|2W0L|C Chain C, Crystal Structure Of The Mutant H8p From The Recombinant
Variable Domain 6jal2
pdb|2W0L|D Chain D, Crystal Structure Of The Mutant H8p From The Recombinant
Variable Domain 6jal2
Length = 111
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 100 RPRSASATPPQQGSNVGPRSTSSAPANHVQWY--YPAGTPATP-FHHHQHHQAVP 151
+P S S +P + + RS+ S +N+VQWY P +P T + +Q VP
Sbjct: 6 QPPSVSESPGKTVTISCTRSSGSIASNYVQWYQQRPGSSPTTVIYEDNQRPSGVP 60
>pdb|1CD0|A Chain A, Structure Of Human Lamda-6 Light Chain Dimer Jto
pdb|1CD0|B Chain B, Structure Of Human Lamda-6 Light Chain Dimer Jto
Length = 111
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 48/110 (43%), Gaps = 13/110 (11%)
Query: 100 RPRSASATPPQQGSNVGPRSTSSAPANHVQWY--YPAGTPATP-FHHHQHHQAVP--FYG 154
+P S S +P + + RS+ + +N+VQWY P P T + +Q VP F G
Sbjct: 6 QPHSVSESPGKTVTISCTRSSGNIDSNYVQWYQQRPGSAPITVIYEDNQRPSGVPDRFAG 65
Query: 155 YSPTCIATDVSYNQPKLSYTGGSYVN--GHFPQMYPGQPIVGATNTLMPI 202
+ D S N L+ +G + ++ Q Y + +V T + +
Sbjct: 66 ------SIDRSSNSASLTISGLKTEDEADYYCQSYDARNVVFGGGTRLTV 109
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 27.3 bits (59), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 32 REALREHFDKYGDILEAVIISDKLTGRSKGYGFVTFKEPEAAKKACE 78
++AL F K G ++ D+ TG++KG+ FV AKK +
Sbjct: 26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIK 72
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 14/62 (22%)
Query: 130 WYYPAGTPATPFHHHQHHQAVPFYGYSPTCIATDVSYNQPKLSYTGGSYVNGHFPQMYPG 189
W Y G AT V YG P +V+YN+ GG+ +NG++ +++P
Sbjct: 292 WLYGGGLAAT---------NVLDYGEYP-----NVAYNKSTDQLPGGAILNGNWDEVFPV 337
Query: 190 QP 191
P
Sbjct: 338 DP 339
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.133 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,650,961
Number of Sequences: 62578
Number of extensions: 397292
Number of successful extensions: 5816
Number of sequences better than 100.0: 220
Number of HSP's better than 100.0 without gapping: 126
Number of HSP's successfully gapped in prelim test: 94
Number of HSP's that attempted gapping in prelim test: 5645
Number of HSP's gapped (non-prelim): 249
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)