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= psy13533
(207 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 169 bits (429), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 76/87 (87%), Positives = 84/87 (96%)
Query: 88 EADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQ 147
EAD RSIYVGNVDYGATAEELE+HFHGCGSVNRVTILC+KF GHPKGFAYIEF+DK+SV+
Sbjct: 2 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 61
Query: 148 TAMAMDESLFRGRQIKVNPKRTNRPGI 174
T++A+DESLFRGRQIKV PKRTNRPGI
Sbjct: 62 TSLALDESLFRGRQIKVIPKRTNRPGI 88
>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 = 169 bits (428), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 76/87 (87%), Positives = 84/87 (96%)
Query: 88 EADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQ 147
EAD RSIYVGNVDYGATAEELE+HFHGCGSVNRVTILC+KF GHPKGFAYIEF+DK+SV+
Sbjct: 3 EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62
Query: 148 TAMAMDESLFRGRQIKVNPKRTNRPGI 174
T++A+DESLFRGRQIKV PKRTNRPGI
Sbjct: 63 TSLALDESLFRGRQIKVIPKRTNRPGI 89
>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 = 157 bits (398), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 68/95 (71%), Positives = 85/95 (89%)
Query: 84 EEKKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADK 143
EEKKE D RS+YVGNVDYG+TA++LE+HF CGS+NR+TILC+KF GHPKG+AYIEFA++
Sbjct: 29 EEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAER 88
Query: 144 DSVQTAMAMDESLFRGRQIKVNPKRTNRPGISTTN 178
+SV A+AMDE++FRGR IKV PKRTN PGIS+T+
Sbjct: 89 NSVDAAVAMDETVFRGRTIKVLPKRTNMPGISSTD 123
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 53/83 (63%), Gaps = 5/83 (6%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+R+IYVGN+ Y AT+E+++ F G V V ++ ++ PKGF ++E + +SV A+
Sbjct: 1 MRNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAI 59
Query: 151 A-MDESLFRGRQIKV---NPKRT 169
A +D + F GR I+V NPK++
Sbjct: 60 AKLDNTDFMGRTIRVTEANPKKS 82
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 47/76 (61%), Gaps = 1/76 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
LRS++VGN+ Y AT E+L+ F G V ++ ++ G PKG+ + E+ D+++ +AM
Sbjct: 8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67
Query: 151 A-MDESLFRGRQIKVN 165
++ F GR ++V+
Sbjct: 68 RNLNGREFSGRALRVD 83
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 50.1 bits (118), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ S+ V N+ Y + + L F G V V I +++ +GFA++ F DK + AM
Sbjct: 70 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 129
Query: 151 -AMDESLFRGRQIKVNPKRTNRP 172
AMD ++ GR+++V R RP
Sbjct: 130 DAMDGAVLDGRELRVQMARYGRP 152
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ S+ V N+ Y + + L F G V V I +++ +GFA++ F DK + AM
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Query: 151 -AMDESLFRGRQIKVNPKRTNRP 172
AMD ++ GR+++V R RP
Sbjct: 107 DAMDGAVLDGRELRVQMARYGRP 129
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 36/73 (49%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
++VG +D+ T E L S+F G V I+ +K +GF +++F D + V T +A
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASR 78
Query: 154 ESLFRGRQIKVNP 166
GR I P
Sbjct: 79 PHTLDGRNIDPKP 91
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-A 151
++YV N+ + T +L F G V +VTI+ +K KG A+I F DKDS Q A
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRA 77
Query: 152 MDESLFRGRQIK 163
++ GR IK
Sbjct: 78 INNKQLFGRVIK 89
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 3/81 (3%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
++EAD R+++VGN++ E L F G + +VTI C +G PK F ++ F +S
Sbjct: 12 QEEAD-RTVFVGNLEARVREEILYELFLQAGPLTKVTI-CKDREGKPKSFGFVCFKHPES 69
Query: 146 VQTAMAMDESL-FRGRQIKVN 165
V A+A+ + GR I V+
Sbjct: 70 VSYAIALLNGIRLYGRPINVS 90
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K+ LR +++G + + T E L SHF G++ ++ + +GF ++ +A +
Sbjct: 7 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 66
Query: 146 VQTAMAMDESLFRGRQIKVNPKR------TNRPGISTT 177
V AM GR V PKR + RPG T
Sbjct: 67 VDAAMNARPHKVDGRV--VEPKRAVSREDSQRPGAHLT 102
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
++ I+VG + L +F G + + I+ ++ G +GFA++ F D DSV
Sbjct: 103 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 158
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K+ LR +++G + + T E L SHF G++ ++ + +GF ++ +A +
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 146 VQTAMAMDESLFRGRQIKVNPKR------TNRPGISTT 177
V AM GR V PKR + RPG T
Sbjct: 68 VDAAMNARPHKVDGRV--VEPKRAVSREDSQRPGAHLT 103
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
++ I+VG + L +F G + + I+ ++ G +GFA++ F D DSV
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 159
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K+ LR +++G + + T E L SHF G++ ++ + +GF ++ +A +
Sbjct: 9 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 68
Query: 146 VQTAMAMDESLFRGRQIKVNPKR------TNRPGISTT 177
V AM GR V PKR + RPG T
Sbjct: 69 VDAAMNARPHKVDGRV--VEPKRAVSREDSQRPGAHLT 104
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
++ I+VG + L +F G + + I+ ++ G +GFA++ F D DSV
Sbjct: 105 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 160
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K+ LR +++G + + T E L SHF G++ ++ + +GF ++ +A +
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 146 VQTAMAMDESLFRGRQIKVNPKR------TNRPGISTT 177
V AM GR V PKR + RPG T
Sbjct: 68 VDAAMNARPHKVDGRV--VEPKRAVSREDSQRPGAHLT 103
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
++ I+VG + L +F G + + I+ ++ G +GFA++ F D DSV
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 159
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K+ LR +++G + + T E L SHF G++ ++ + +GF ++ +A +
Sbjct: 1 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60
Query: 146 VQTAMAMDESLFRGRQIKVNPKR------TNRPGISTT 177
V AM GR V PKR + RPG T
Sbjct: 61 VDAAMNARPHKVDGRV--VEPKRAVSREDSQRPGAHLT 96
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
++ I+VG + L +F G + + I+ ++ G +GFA++ F D DSV
Sbjct: 97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 152
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K+ LR +++G + + T E L SHF G++ ++ + +GF ++ +A +
Sbjct: 6 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 65
Query: 146 VQTAMAMDESLFRGRQIKVNPKR------TNRPGISTT 177
V AM GR V PKR + RPG T
Sbjct: 66 VDAAMNARPHKVDGRV--VEPKRAVSREDSQRPGAHLT 101
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
++ I+VG + L +F G + + I+ ++ G +GFA++ F D DSV
Sbjct: 102 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 157
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA-M 152
++V N+ Y ++ E+LE F G ++ + + PKGFA++ F + A A +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 153 DESLFRGRQIKVNPKRTNR 171
D +F+GR + V P +
Sbjct: 71 DGQVFQGRMLHVLPSTIKK 89
>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large
Subunit
Length = 87
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---------KGFAYIEFAD 142
R +YVGN+ +G T E + F+ + +T + G+P K FA++EF
Sbjct: 7 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLT----QAPGNPVLAVQINQDKNFAFLEFRS 62
Query: 143 KDSVQTAMAMDESLFRGRQIKV 164
D AMA D +F+G+ +K+
Sbjct: 63 VDETTQAMAFDGIIFQGQSLKI 84
>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of
Hu2af65
Length = 90
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---------KGFAYIEFAD 142
R +YVGN+ +G T E + F+ + +T + G+P K FA++EF
Sbjct: 2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLT----QAPGNPVLAVQINQDKNFAFLEFRS 57
Query: 143 KDSVQTAMAMDESLFRGRQIKV 164
D AMA D +F+G+ +K+
Sbjct: 58 VDETTQAMAFDGIIFQGQSLKI 79
>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 = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---------KGFAYIEFAD 142
R +YVGN+ +G T E + F+ + +T + G+P K FA++EF
Sbjct: 7 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLT----QAPGNPVLAVQINQDKNFAFLEFRS 62
Query: 143 KDSVQTAMAMDESLFRGRQIKV 164
D AMA D +F+G+ +K+
Sbjct: 63 VDETTQAMAFDGIIFQGQSLKI 84
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---------KGFAYIEFAD 142
R +YVGN+ +G T E + F+ + +T + G+P K FA++EF
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLT----QAPGNPVLAVQINQDKNFAFLEFRS 60
Query: 143 KDSVQTAMAMDESLFRGRQIKV 164
D AMA D +F+G+ +K+
Sbjct: 61 VDETTQAMAFDGIIFQGQSLKI 82
>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 = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---------KGFAYIEFAD 142
R +YVGN+ +G T E + F+ + +T + G+P K FA++EF
Sbjct: 5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLT----QAPGNPVLAVQINQDKNFAFLEFRS 60
Query: 143 KDSVQTAMAMDESLFRGRQIKV 164
D AMA D +F+G+ +K+
Sbjct: 61 VDETTQAMAFDGIIFQGQSLKI 82
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 38/80 (47%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
+K+ I+VG + Y T L +F G G + ++ ++ G +G+ ++ AD+ +
Sbjct: 12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAA 71
Query: 146 VQTAMAMDESLFRGRQIKVN 165
+ A + GR+ VN
Sbjct: 72 AERACKDPNPIIDGRKANVN 91
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++++V V+Y T +L F G + R+ ++ +K G P+G+A+IE+ + + +A
Sbjct: 102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY 161
Query: 151 A-MDESLFRGRQIKVNPKR 168
D GR++ V+ +R
Sbjct: 162 KHADGKKIDGRRVLVDVER 180
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++++V V+Y T +L F G + R+ ++ +K G P+G+A+IE+ + + +A
Sbjct: 102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAY 161
Query: 151 A-MDESLFRGRQIKVN 165
D GR++ V+
Sbjct: 162 KHADGKKIDGRRVLVD 177
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAM 152
+YVGN+ GA ELE F G + V I N P GFA++EF D +D+ +
Sbjct: 3 VYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGL 57
Query: 153 DESLFRGRQIKV 164
D + G +++V
Sbjct: 58 DGKVICGSRVRV 69
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 3/86 (3%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
I+VG + + EL +F G V V ++ + P+GF +I F D+ SV A+ M
Sbjct: 13 IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72
Query: 154 ESLFRGRQIKVN---PKRTNRPGIST 176
G++++V P+ + G S+
Sbjct: 73 FHDIMGKKVEVKRAEPRDSKSSGPSS 98
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 4/87 (4%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA-MAM 152
++VG + + + LE F G ++ V ++ ++ +GF ++ F + D + A MAM
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 153 DESLFRGRQIKVN---PKRTNRPGIST 176
+ GRQI+V+ NR G S+
Sbjct: 75 NGKSVDGRQIRVDQAGKSSDNRSGPSS 101
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
+++G + + T ++L+ +F G V T+ + G +GF ++ F + +SV M
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 154 ESLFRGRQIKVNPKR 168
E G+ I +PKR
Sbjct: 62 EHKLNGKVI--DPKR 74
>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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
K E D +VG + + + ++L+ +F G V TI + G +GF +I F D S
Sbjct: 6 KNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAAS 65
Query: 146 VQTAMAMDESLFRGRQIKVNPKR 168
V+ + E GR I +PK+
Sbjct: 66 VEKVLDQKEHRLDGRVI--DPKK 86
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 1/84 (1%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA-MA 151
++ V N+ Y + + L F G V V I P+GFA++ F D+ Q A A
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74
Query: 152 MDESLFRGRQIKVNPKRTNRPGIS 175
MD + GR+++V R R +S
Sbjct: 75 MDGAELDGRELRVQVARYGRRDLS 98
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 95 YVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMDE 154
YVGN+ + ++++ F S+ V ++ +K KGF Y+EF + DS++ A+ D
Sbjct: 19 YVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDG 77
Query: 155 SLFRGRQIKVN 165
+L R ++V+
Sbjct: 78 ALLGDRSLRVD 88
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 35/59 (59%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
++YV N+ T ++L++ F GS+ + IL +K G P+G A++ + ++ Q A++
Sbjct: 15 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 73
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 35/59 (59%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
++YV N+ T ++L++ F GS+ + IL +K G P+G A++ + ++ Q A++
Sbjct: 102 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 160
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 1/98 (1%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF-ADKDSVQTAMAMDESLFRGRQI 162
T EL + F G +N I + G+ G+A+++F ++ DS + ++ R +++
Sbjct: 27 TDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVLNGITVRNKRL 86
Query: 163 KVNPKRTNRPGISTTNXXXXXXXXXXXXXXXAAMYGGY 200
KV+ R I TN ++G Y
Sbjct: 87 KVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKY 124
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 35/59 (59%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
++YV N+ T ++L++ F GS+ + IL +K G P+G A++ + ++ Q A++
Sbjct: 91 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAIS 149
Score = 33.5 bits (75), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF-ADKDSVQTAMAMDESLFRGRQI 162
T EL + F G +N I+ + G+ G+A+++F ++ DS + ++ R +++
Sbjct: 16 TDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRL 75
Query: 163 KVNPKRTNRPGISTTN 178
KV+ R I TN
Sbjct: 76 KVSYARPGGESIKDTN 91
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%)
Query: 88 EADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQ 147
E D R+++ + +LE F G V V I+ ++ KG AY+EF + SV
Sbjct: 22 ERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVP 81
Query: 148 TAMAMDESLFRGRQIKV 164
A+ + G I V
Sbjct: 82 LAIGLTGQRLLGVPIIV 98
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 9/94 (9%)
Query: 88 EADLRSIYVGNVDYGATAEELESHFHGCGSV--NRVT------ILCNKFDGHPKGFAYIE 139
++D +IYV ++ T ++L F CG V N+ T I +K G PKG A +
Sbjct: 12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVS 71
Query: 140 FADKDSVQTAM-AMDESLFRGRQIKVNPKRTNRP 172
+ D + + A+ D F+G ++KV+ R P
Sbjct: 72 YEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPP 105
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKD-SVQTAMAM 152
+++ + + T EELE G+V + ++ N+ G PKG AY+E+ ++ + Q M M
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKM 78
Query: 153 DESLFRGRQIKV 164
D + IKV
Sbjct: 79 DGMTIKENIIKV 90
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 83 IEEKK--EADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF 140
+E KK + R +++G + + T E L +++ G + ++ + +GF ++ F
Sbjct: 17 LERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
Query: 141 ADKDSVQTAMAMDESLFRGRQIKVNPKR 168
+ V AMA GR V PKR
Sbjct: 77 SSMAEVDAAMAARPHSIDGRV--VEPKR 102
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAM 152
+++VG +D E+ S F GSV V I+ ++ G KG+ ++ F + VQ +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQ-KIVE 68
Query: 153 DESLFRGRQIKVNP 166
+ F G+++K+ P
Sbjct: 69 SQINFHGKKLKLGP 82
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF 140
KKE D R++ N+ Y T +EL+ F + V+ DG KG AYIEF
Sbjct: 88 KKERDARTLLAKNLPYKVTQDELKEVFEDAAEIRLVSK-----DGKSKGIAYIEF 137
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 41/76 (53%), Gaps = 2/76 (2%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAM 152
+++VGN+++ +A EL++ + N + ++ + G + F Y++F + ++ A+ +
Sbjct: 9 NLFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVRI-GMTRKFGYVDFESAEDLEKALEL 67
Query: 153 DESLFRGRQIKV-NPK 167
G +IK+ PK
Sbjct: 68 TGLKVFGNEIKLEKPK 83
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 89 ADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQT 148
A + +YVG++ Y + + F G + + + + KGFA++E+ ++ Q
Sbjct: 26 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQL 85
Query: 149 AM-AMDESLFRGRQIKVN 165
A+ M+ + GR IKV
Sbjct: 86 ALEQMNSVMLGGRNIKVG 103
Score = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
IYV +V + ++++S F G + T+ + G KG+ +IE+ S Q A++
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 85 EKKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKD 144
+K A +YVG++ + T + L F G + + ++ + G KG+ +I F+D +
Sbjct: 20 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 79
Query: 145 SVQTAM-AMDESLFRGRQIKV 164
+ A+ ++ GR +KV
Sbjct: 80 CAKKALEQLNGFELAGRPMKV 100
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAM 152
+++VG +D E+ S F GSV V I+ ++ G KG+ ++ F + VQ +
Sbjct: 12 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQ-KIVE 69
Query: 153 DESLFRGRQIKVNP 166
+ F G+++K+ P
Sbjct: 70 SQINFHGKKLKLGP 83
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAM 152
+++VG +D E+ S F GSV V I+ ++ G KG+ ++ F + VQ +
Sbjct: 11 TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQ-KIVE 68
Query: 153 DESLFRGRQIKVNP 166
+ F G+++K+ P
Sbjct: 69 SQINFHGKKLKLGP 82
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA-M 152
++VG++ T E+++S F G ++ ++ + G KG+ ++ F +K + A+ M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 153 DESLFRGRQIKVN 165
GRQI+ N
Sbjct: 78 GGQWLGGRQIRTN 90
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 33/59 (55%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
R +Y+G++ Y T E++ G V + ++ + G KG+A+IEF D +S +A+
Sbjct: 5 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 63
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 33/59 (55%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
R +Y+G++ Y T E++ G V + ++ + G KG+A+IEF D +S +A+
Sbjct: 3 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61
>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 = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
+YVG++ Y + + F G + + + + KGFA++E+ ++ Q A+ M
Sbjct: 16 VYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQM 75
Query: 153 DESLFRGRQIKVN 165
+ + GR IKV
Sbjct: 76 NSVMLGGRNIKVG 88
Score = 30.8 bits (68), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
IYV +V + ++++S F G + T+ + G KG+ +IE+ S Q A++
Sbjct: 113 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 4/84 (4%)
Query: 87 KEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS- 145
K+ D ++VG + G ++L+ F G + +T+L ++ G KG A++ + +DS
Sbjct: 11 KDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSA 70
Query: 146 --VQTAMAMDESLF-RGRQIKVNP 166
Q+A+ ++L R I+V P
Sbjct: 71 LKAQSALHEQKTLPGMNRPIQVKP 94
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 33/59 (55%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
R +Y+G++ Y T E++ G V + ++ + G KG+A+IEF D +S +A+
Sbjct: 4 RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 62
>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 = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 41/85 (48%), Gaps = 1/85 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++VG++ T E++++ F G ++ ++ + G KG+ ++ F +K + A+ M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 153 DESLFRGRQIKVNPKRTNRPGISTT 177
GRQI+ N P +T
Sbjct: 78 GGQWLGGRQIRTNWATRKPPAPKST 102
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAM 152
+YVGN+ ELE F G + V + N P GFA++EF D +D+ +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVREL 130
Query: 153 DESLFRGRQIKV 164
D G +++V
Sbjct: 131 DGRTLCGCRVRV 142
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAM 152
+YVGN+ ELE F G + V + N P GFA++EF D +D+ +
Sbjct: 76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRDL 130
Query: 153 DESLFRGRQIKV 164
D G +++V
Sbjct: 131 DGRTLCGCRVRV 142
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 45/84 (53%), Gaps = 4/84 (4%)
Query: 87 KEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS- 145
K+ D +++G + ++L+ F G + +T+L ++F G KG A++ + +++S
Sbjct: 9 KDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESA 68
Query: 146 --VQTAMAMDESLF-RGRQIKVNP 166
Q+A+ ++L R I+V P
Sbjct: 69 LKAQSALHEQKTLPGMNRPIQVKP 92
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 30/58 (51%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++YVGN+ + T E++ F G + ++ + +K GF ++E+ + + AM
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98
>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 = 35.0 bits (79), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
+++G +++ T + L +F G+V + I+ + G +GF ++ F SV +
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT- 64
Query: 154 ESLFRGRQIKVNPKR 168
+ + G+ I +PKR
Sbjct: 65 QHILDGKVI--DPKR 77
Score = 33.5 bits (75), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 33/71 (46%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
I+VG + +E E F G++ ++ +K G +GF ++ + D+V
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNK 149
Query: 154 ESLFRGRQIKV 164
F+ R+I++
Sbjct: 150 FIDFKDRKIEI 160
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 34.7 bits (78), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 31/57 (54%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+YVG++ + T + L F G ++ + ++ + G KG+ +I F+D + + A+
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 64
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 34.3 bits (77), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
R +YVGN+D T + L+ +F G + + I+ +K + +A++E+ A+
Sbjct: 1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIAL- 58
Query: 152 MDESLFRGRQIKVNPKRTN 170
G+QI+ N + N
Sbjct: 59 ---QTLNGKQIENNIVKIN 74
Score = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 84 EEKKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADK 143
++ D +++VG+++ E L + F S ++ + G +G+ ++ F +
Sbjct: 80 QQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQ 139
Query: 144 DSVQTAM-AMDESLFRGRQIKVN 165
D Q AM +M GR +++N
Sbjct: 140 DDAQNAMDSMQGQDLNGRPLRIN 162
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 34/66 (51%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
++ D +I V N+ +L+ F GS++R+ + +K G KGFA+I F ++
Sbjct: 10 RRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRRED 69
Query: 146 VQTAMA 151
A+A
Sbjct: 70 AARAIA 75
>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 = 33.9 bits (76), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
+YVG++ Y + + F G + + + KGFA++E+ ++ Q A+
Sbjct: 15 VYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQX 74
Query: 154 ESL-FRGRQIKVN 165
S+ GR IKV
Sbjct: 75 NSVXLGGRNIKVG 87
Score = 30.4 bits (67), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
IYV +V + ++++S F G + T+ + G KG+ +IE+ S Q A++
Sbjct: 112 IYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 169
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 33.5 bits (75), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 4/89 (4%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM- 150
R +YVG + + L + F G + + I + +GFA++EF + A+
Sbjct: 13 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72
Query: 151 AMDESLFRGRQIKVN---PKRTNRPGIST 176
M+ES GR I+VN P R G S+
Sbjct: 73 NMNESELFGRTIRVNLAKPMRIKESGPSS 101
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 33.5 bits (75), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
+++G + + T E L +F G V ++ + +GF ++ F D+ V +A
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 85
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAM 152
IYVGN+ +++E F+ G++ + L N+ G P FA++EF D +D+
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDID-LKNRRGGPP--FAFVEFEDPRDAEDAVYGR 81
Query: 153 DESLFRGRQIKVNPKRTNR 171
D + G +++V R+ R
Sbjct: 82 DGYDYDGYRLRVEFPRSGR 100
>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 = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 93 SIYVGNVDYGATAEELESHFHGCG--SVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++Y+GN+ + T E+L H G + + N+ +G KGFA + + S + M
Sbjct: 3 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62
Query: 151 AM 152
+
Sbjct: 63 DL 64
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 27/58 (46%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMA 151
+++G + + T E L +F G V ++ + +GF ++ F D+ V +A
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA 60
>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 = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-A 151
+++VG+++ E L + F S ++ + G +G+ ++ F +D Q AM +
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62
Query: 152 MDESLFRGRQIKVN 165
M GR +++N
Sbjct: 63 MQGQDLNGRPLRIN 76
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA-MAM 152
++VGN+ T EE+ F G V I + KGF +I + + A + +
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 78
Query: 153 DESLFRGRQIKV 164
D RG+Q++V
Sbjct: 79 DNMPLRGKQLRV 90
>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 = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 93 SIYVGNVDYGATAEELESHFHGCG--SVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++Y+GN+ + T E+L H G + + N+ +G KGFA + + S + M
Sbjct: 70 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 129
Query: 151 AM 152
+
Sbjct: 130 DL 131
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ ++YVG + T +L +HF+ G + +T++ + A+I+FA + + + A
Sbjct: 12 ITTLYVGGLGDTITETDLRNHFYQFGEIRTITVV------QRQQCAFIQFATRQAAEVAA 65
Query: 151 --AMDESLFRGRQIKVNPKR 168
+ ++ + GR++ V R
Sbjct: 66 EKSFNKLIVNGRRLNVKWGR 85
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM- 150
+++ + N+ Y AT E L+ F + + N+ +G KG+A+IEFA + + A+
Sbjct: 16 KTLVLSNLSYSATEETLQEVFE---KATFIKVPQNQ-NGKSKGYAFIEFASFEDAKEALN 71
Query: 151 AMDESLFRGRQIKV 164
+ ++ GR I++
Sbjct: 72 SCNKREIEGRAIRL 85
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 32.0 bits (71), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF-ADKDSVQTAMAMDESLFRGRQI 162
T EL + F G +N I+ + G+ G+A+++F ++ DS + ++ R +++
Sbjct: 16 TDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRL 75
Query: 163 KVNPKRTNRPG 173
KV+ RPG
Sbjct: 76 KVS---YARPG 83
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 32.0 bits (71), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM- 150
R +YVG + + L + F G + + I + +GFA++EF + A+
Sbjct: 3 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 62
Query: 151 AMDESLFRGRQIKVN 165
M+ES GR I+VN
Sbjct: 63 NMNESELFGRTIRVN 77
>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 = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM- 150
R +YVG + + L + F G + + I + +GFA++EF + A+
Sbjct: 8 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67
Query: 151 AMDESLFRGRQIKVN 165
M+ES GR I+VN
Sbjct: 68 NMNESELFGRTIRVN 82
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM- 150
R +YVG + + L + F G + + I + +GFA++EF + A+
Sbjct: 6 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 65
Query: 151 AMDESLFRGRQIKVN 165
M+ES GR I+VN
Sbjct: 66 NMNESELFGRTIRVN 80
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 29/54 (53%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQ 147
I+VG + T E+++ +F G V+ ++ +K +GF ++ F +D V+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVE 55
>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 = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 30/60 (50%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++ I+VG + E++ +F G G V + + + +GF +I F +++ V+ M
Sbjct: 1 VKKIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 60
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM- 150
R +YVG + + L + F G + + I + +GFA++EF + A+
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123
Query: 151 AMDESLFRGRQIKVN 165
M+ES GR I+VN
Sbjct: 124 NMNESELFGRTIRVN 138
>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 = 31.2 bits (69), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
++YVGN+ + T E++ F G + ++ + +K GF ++E+ + + AM
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK-TACGFCFVEYYSRADAENAM 76
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
LR++ V + +L F G + V I+C++ +G+ +++F S Q A+
Sbjct: 42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101
Query: 151 A 151
A
Sbjct: 102 A 102
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGH-PKGFAYIEFADKDSVQTAMA- 151
+++G + T + + F G + + + + H KG+AY+EF + D + A+
Sbjct: 7 VHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKH 66
Query: 152 MDESLFRGRQI 162
MD G++I
Sbjct: 67 MDGGQIDGQEI 77
>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 = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAMDESLFRGRQI 162
T +EL S F G V ++ +K GH G+ ++ + KD+ + ++ + + I
Sbjct: 32 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI 91
Query: 163 KVNPKR 168
KV+ R
Sbjct: 92 KVSYAR 97
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
R ++VG + T E++ F G+++ T+L DG KG A+++F Q A+
Sbjct: 13 RKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGP-DGTSKGCAFVKFQTHAEAQAAI 70
>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 = 30.8 bits (68), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAMDESLFRGRQI 162
T +EL S F G V ++ +K GH G+ ++ + KD+ + ++ + + I
Sbjct: 17 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI 76
Query: 163 KVNPKR 168
KV+ R
Sbjct: 77 KVSYAR 82
>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 = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAMDESLFRGRQI 162
T +EL S F G V ++ +K GH G+ ++ + KD+ + ++ + + I
Sbjct: 15 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI 74
Query: 163 KVNPKR 168
KV+ R
Sbjct: 75 KVSYAR 80
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 104 TAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFAD-KDSVQTAMAMDESLFRGRQI 162
T +EL S F G V ++ +K GH G+ ++ + KD+ + ++ + + I
Sbjct: 15 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI 74
Query: 163 KVNPKR 168
KV+ R
Sbjct: 75 KVSYAR 80
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 30.4 bits (67), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 7/72 (9%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA-MAM 152
++VGN+ T EE+ F G V F KGF +I + + A + +
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEV------FIHKDKGFGFIRLETRTLAEIAKVEL 71
Query: 153 DESLFRGRQIKV 164
D RG+Q++V
Sbjct: 72 DNMPLRGKQLRV 83
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 30.4 bits (67), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 12/75 (16%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPK---GFAYIEFADKDSVQTAM 150
++VG TAEEL+ F G V V I PK FA++ FAD D V ++
Sbjct: 14 VFVGRCTEDMTAEELQQFFCQYGEVVDVFI--------PKPFRAFAFVTFAD-DKVAQSL 64
Query: 151 AMDESLFRGRQIKVN 165
++ + +G + ++
Sbjct: 65 CGEDLIIKGISVHIS 79
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation Initiation
Factor 4b
Length = 100
Score = 30.4 bits (67), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 42/76 (55%), Gaps = 6/76 (7%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---KGFAYIEFADKDSVQTA 149
+ ++GN+ Y T E ++ F G +N + + +P KGF Y EF D DS+ +A
Sbjct: 21 TAFLGNLPYDVTEESIKEFFRG---LNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSA 77
Query: 150 MAMDESLFRGRQIKVN 165
++++E R+I+V+
Sbjct: 78 LSLNEESLGNRRIRVD 93
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 30.0 bits (66), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 28/57 (49%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
I+VG + E++ +F G G V + + + +GF +I F +++ V+ M
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 58
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 30.0 bits (66), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF-ADKDSVQTAM 150
++++V + T E L+ F G SV R I+ ++ G KGF +++F +++D+
Sbjct: 16 KTLFVKGLSEDTTEETLKESFDG--SV-RARIVTDRETGSSKGFGFVDFNSEEDAKAAKE 72
Query: 151 AMDESLFRGRQIKVN 165
AM++ G ++ ++
Sbjct: 73 AMEDGEIDGNKVTLD 87
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA 149
+ V N+ T ++ E GS+ R ++ ++ G KG+ + E+ KDS A
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA 149
+ V N+ T ++ E GS+ R ++ ++ G KG+ + E+ KDS A
Sbjct: 96 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 151
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVT-ILCNKFDGHPKGFAYIEFADKDSVQTAM-A 151
I++GN+D + L F G + + I+ + G+ KG+A+I FA D+ A+ A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 152 MDESLFRGRQIKVN 165
M+ R I V+
Sbjct: 68 MNGQYLCNRPITVS 81
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTA 149
+ V N+ T ++ E GS+ R ++ ++ G KG+ + E+ KDS A
Sbjct: 98 LCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARA 153
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 86 KKEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDS 145
+K +DL I +G + + T ++L+ +F G V V + + GH KGF ++ F + ++
Sbjct: 13 QKTSDL--IVLG-LPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYET 69
Query: 146 VQTAMA 151
M+
Sbjct: 70 QVKVMS 75
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 117 SVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+V V I+ N+ G P G+ ++EFAD + + +
Sbjct: 36 TVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL 69
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/75 (20%), Positives = 34/75 (45%), Gaps = 1/75 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ S+YVG++ T L F G + + + + G+AY+ F + A+
Sbjct: 10 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 69
Query: 151 -AMDESLFRGRQIKV 164
M+ + +G+ +++
Sbjct: 70 DTMNFDVIKGKPVRI 84
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/79 (18%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 87 KEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
+++ + +I++ N+D + L F G++ ++C+ + KG+ ++ F +++
Sbjct: 94 RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAA 151
Query: 147 QTAM-AMDESLFRGRQIKV 164
+ A+ M+ L R++ V
Sbjct: 152 ERAIEKMNGMLLNDRKVFV 170
>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 = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF 140
R++ N+ + T +EL+ F + V+ DG KG AYIEF
Sbjct: 100 RTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKSKGIAYIEF 143
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/85 (21%), Positives = 42/85 (49%), Gaps = 7/85 (8%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF-ADKDSVQTAMAM 152
++V ++ A +E++ F G + + + ++ G KG+A +E+ K ++ A+
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 134
Query: 153 DESLFRGRQIKVN------PKRTNR 171
+ + G+ I+V+ PKR +
Sbjct: 135 NGAEIMGQTIQVDWCFVKGPKRVKK 159
>pdb|1FJC|A Chain A, Solution Structure Of Nucleolin Rbd2
Length = 96
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF 140
R++ N+ + T +EL+ F + V+ DG KG AYIEF
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKSKGIAYIEF 60
>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 = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/75 (20%), Positives = 34/75 (45%), Gaps = 1/75 (1%)
Query: 91 LRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ S+YVG++ T L F G + + + + G+AY+ F + A+
Sbjct: 15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 74
Query: 151 -AMDESLFRGRQIKV 164
M+ + +G+ +++
Sbjct: 75 DTMNFDVIKGKPVRI 89
Score = 26.9 bits (58), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 15/79 (18%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 87 KEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
+++ + +I++ N+D + L F G++ ++C+ + KG+ ++ F +++
Sbjct: 99 RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAA 156
Query: 147 QTAM-AMDESLFRGRQIKV 164
+ A+ M+ L R++ V
Sbjct: 157 ERAIEKMNGMLLNDRKVFV 175
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 7/71 (9%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAMAMD 153
++VGN+ T +EL + F G V I C+ + F ++E A+ D+V+ +D
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPV----IECDIVKDY--AFVHMERAE-DAVEAIRGLD 65
Query: 154 ESLFRGRQIKV 164
+ F+G+++ V
Sbjct: 66 NTEFQGKRMHV 76
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+YV N+D G E L F G++ ++ G KGF ++ F+ + A+
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAV 72
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic
Initiation Factor 4b
Length = 104
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 42/76 (55%), Gaps = 6/76 (7%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHP---KGFAYIEFADKDSVQTA 149
+ ++GN+ Y T E ++ F G +N + + +P KGF Y EF D DS+ +A
Sbjct: 17 TAFLGNLPYDVTEESIKEFFRG---LNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSA 73
Query: 150 MAMDESLFRGRQIKVN 165
++++E ++I+V+
Sbjct: 74 LSLNEESLGNKRIRVD 89
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF 140
+YV + T +ELE F G + IL ++ G +G +I F
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRF 137
>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat Specific
Factor 1 Variant
Length = 112
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 128 FDGHPKGFAYIEFADKDSVQTAM-AMDESLFRGRQI 162
FD HP G A + F D + + +D F GRQI
Sbjct: 59 FDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI 94
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 92 RSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
R ++VG ++ + +++ F G++ TIL DG+ KG A+++++ Q A+
Sbjct: 16 RKLFVGMLNKQQSEDDVRRLFEAFGNIEECTIL-RGPDGNSKGCAFVKYSSHAEAQAAI 73
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++V V AT E++ F G + + + ++ G+ KG+ +E+ Q AM +
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 85
Query: 153 DESLFRGRQIKVN 165
+ G+ I V+
Sbjct: 86 NGQDLMGQPISVD 98
>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In
Heterogeneous Nuclear Ribonucleoprotein H
Length = 104
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%)
Query: 98 NVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ +G + EE+ F G V L F G G A+++FA ++ + A+
Sbjct: 22 GLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKAL 74
>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 = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++V V AT E++ F G + + + ++ G+ KG+ +E+ Q AM +
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 84
Query: 153 DESLFRGRQIKVN 165
+ G+ I V+
Sbjct: 85 NGQDLMGQPISVD 97
>pdb|2LXI|A Chain A, Nmr Structure Of The N-Terminal Rna Binding Domain 1
(Rrm1) Of The Protein Rbm10 From Homo Sapiens
Length = 91
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 102 GATAEELESHFHGCGSVNR-VTILCNKFDGHPKGFAYIEFA 141
AT +++ G R V ++ NK G +GFA++EF+
Sbjct: 12 AATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFS 52
>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
Of The Yeast Splicing Factor Prp24
Length = 292
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 108 LESHFHGCGSVNRVTILC-NKFDGHPKGFAYIEFADKDSVQTAMAMDESLFRGRQIKVN 165
L F G GS+ ++ I K A+ F +KDS + A+ + SL R+I V+
Sbjct: 228 LRESFEGFGSIEKINIPAGQKEHSFNNCCAFXVFENKDSAERALQXNRSLLGNREISVS 286
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 41/82 (50%), Gaps = 7/82 (8%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEF-ADKDSVQTAMAM 152
++V ++ A +E++ F G + + + ++ G KG+A +E+ K ++ A+
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 88
Query: 153 DESLFRGRQIKVN------PKR 168
+ + G+ I+V+ PKR
Sbjct: 89 NGAEIMGQTIQVDWCFVKGPKR 110
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/79 (18%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 87 KEADLRSIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSV 146
+++ + +I++ N+D + L F G++ ++C+ + KG+ ++ F +++
Sbjct: 7 RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAA 64
Query: 147 QTAM-AMDESLFRGRQIKV 164
+ A+ M+ L R++ V
Sbjct: 65 ERAIEKMNGMLLNDRKVFV 83
>pdb|2DHA|A Chain A, Solution Structure Of The Second Rna Recognition Motif In
Hypothetical Protein Flj201171
Length = 123
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 99 VDYGATAEELESHF--HGCGSVNRVTILCNKF-DGHPKGFAYIEFADKDSVQTAMAMDES 155
+ + ATAEE+ + F H + + IL + DG P G A++ FA ++ Q A+ +
Sbjct: 31 LPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKD 90
Query: 156 LFRGRQIKV 164
L R I++
Sbjct: 91 LLGKRYIEL 99
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNR---VTILCNKFDGHPKGFAYIEFADKDSVQTAM 150
+ V + + +A+E++ F C N + + + +G P G A++E +D V+ A+
Sbjct: 10 VKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTR-EGRPSGEAFVELESEDEVKLAL 68
Query: 151 AMDESLFRGRQIKV 164
D R ++V
Sbjct: 69 KKDRETMGHRYVEV 82
>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 = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++V V AT E++ F G + + + ++ G+ KG+ +E+ Q AM +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 153 DESLFRGRQIKVN 165
+ G+ I V+
Sbjct: 70 NGQDLMGQPISVD 82
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++V V AT E++ F G + + + ++ G+ KG+ +E+ Q AM +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 153 DESLFRGRQIKVN 165
+ G+ I V+
Sbjct: 70 NGQDLMGQPISVD 82
>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 = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++V V AT E++ F G + + + ++ G+ KG+ +E+ Q AM +
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 71
Query: 153 DESLFRGRQIKVN 165
+ G+ I V+
Sbjct: 72 NGQDLMGQPISVD 84
>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 = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 94 IYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-AM 152
++V V AT E++ F G + + + ++ G+ KG+ +E+ Q AM +
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL 69
Query: 153 DESLFRGRQIKVN 165
+ G+ I V+
Sbjct: 70 NGQDLMGQPISVD 82
>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 = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 93 SIYVGNVDYGATAEELESHFHGCGSVNRVTILCNKFDGHPKGFAYIEFADKDSVQTAM-A 151
+I++ N+D + L F G++ ++C+ + KG+ ++ F +++ + A+
Sbjct: 7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEK 64
Query: 152 MDESLFRGRQIKV 164
M+ L R++ V
Sbjct: 65 MNGMLLNDRKVFV 77
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.313 0.129 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,279,407
Number of Sequences: 62578
Number of extensions: 186157
Number of successful extensions: 550
Number of sequences better than 100.0: 132
Number of HSP's better than 100.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 426
Number of HSP's gapped (non-prelim): 158
length of query: 207
length of database: 14,973,337
effective HSP length: 94
effective length of query: 113
effective length of database: 9,091,005
effective search space: 1027283565
effective search space used: 1027283565
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)