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= psy17949
(96 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 = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 46/54 (85%), Positives = 51/54 (94%)
Query: 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
QKDTT+TK+FVGGLPYHTTD SLR++F FGDIEEAVVITDRQTGKSRGYGFV+
Sbjct: 12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVT 65
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 26/47 (55%), Positives = 36/47 (76%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLFVGGL + T ++SL + FS +G I E VV+ DR+T +SRG+GFV+
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVT 60
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 47/75 (62%)
Query: 16 GADGLVGSLATLTTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVI 75
G+ G G TL T + +++ + KLF+GGL + TT++SLR ++ +G + + VV+
Sbjct: 1 GSSGSSGMEKTLETVPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVM 60
Query: 76 TDRQTGKSRGYGFVS 90
D + +SRG+GFV+
Sbjct: 61 RDPASKRSRGFGFVT 75
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing
7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta
(Prn) Gg); A Human Telomeric Repeat Containing
Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(2pr) G); A Human Telomeric Repeat
Containing 2-Aminopurine
Length = 196
Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/60 (45%), Positives = 39/60 (65%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S S ++ KLF+GGL + TTD+SLR HF +G + + VV+ D T +SRG+GFV+
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Score = 48.9 bits (115), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 33/50 (66%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T K+FVGG+ T + LR++F +G IE ++TDR +GK RG+ FV+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT 152
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/60 (45%), Positives = 39/60 (65%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S S ++ KLF+GGL + TTD+SLR HF +G + + VV+ D T +SRG+GFV+
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 62
Score = 48.9 bits (115), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 33/50 (66%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T K+FVGG+ T + LR++F +G IE ++TDR +GK RG+ FV+
Sbjct: 104 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT 153
>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 = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/60 (45%), Positives = 39/60 (65%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S S ++ KLF+GGL + TTD+SLR HF +G + + VV+ D T +SRG+GFV+
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 60
Score = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 33/50 (66%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T K+FVGG+ T + LR++F +G IE ++TDR +GK RG+ FV+
Sbjct: 102 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT 151
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/60 (45%), Positives = 39/60 (65%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S S ++ KLF+GGL + TTD+SLR HF +G + + VV+ D T +SRG+GFV+
Sbjct: 2 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61
Score = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 33/50 (66%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T K+FVGG+ T + LR++F +G IE ++TDR +GK RG+ FV+
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT 152
>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 = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 25/47 (53%), Positives = 35/47 (74%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGL + TTD+SLR HF +G + + VV+ D T +SRG+GFV+
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 54
Score = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 33/50 (66%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T K+FVGG+ T + LR++F +G IE ++TDR +GK RG+ FV+
Sbjct: 96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT 145
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 25/47 (53%), Positives = 35/47 (74%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGL + TTD+SLR HF +G + + VV+ D T +SRG+GFV+
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 59
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 33/50 (66%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T K+FVGG+ T + LR++F +G IE ++TDR +GK RG+ FV+
Sbjct: 101 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT 150
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 36/48 (75%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
K+F+GGL + TT + LRE+F FG+++E +V+ D T +SRG+GFV+
Sbjct: 26 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 73
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 36/48 (75%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
K+F+GGL + TT + LRE+F FG+++E +V+ D T +SRG+GFV+
Sbjct: 1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVT 48
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 36/46 (78%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
KLFVGGL + TT ++LR +FS +G++ + V++ D+ T +SRG+GFV
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFV 63
>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 = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 37/56 (66%)
Query: 34 NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
N+ + + K FVGGL + T+ K L+++F+ FG++ + + D TG+SRG+GF+
Sbjct: 3 NASKNEEDAGKXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI 58
>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 = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 35/48 (72%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
K+F+GGL + TT+ +LRE+F +G + + ++ D TG+SRG+GF+S
Sbjct: 4 CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLS 51
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 31/47 (65%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
K+FVGG+ K E FS +G I +A ++ D+ TG+SRG+GFV+
Sbjct: 89 KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVT 135
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 33/48 (68%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
K+FVGG+P++ + LRE+F FG + E V+I D + + RG+GF++
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFIT 58
>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 = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 33/45 (73%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+F+GGL + TT K L+++FS FG++ + + D TG+SRG+GFV
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV 46
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
D + +FVG +PY T++ L++ FS G + ++ DR+TGK +GYGF
Sbjct: 5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCE 56
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 48.5 bits (114), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 34/50 (68%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
L V GLP+ TT++ L+E+FS FG++ V D +TG S+G+GFV + Y
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEY 67
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 38/60 (63%), Gaps = 3/60 (5%)
Query: 36 QQKDTT-WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
Q+KDT+ +FVG L T + ++ F+ FG I +A V+ D TGKS+GYGFV SFY
Sbjct: 8 QKKDTSNHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFV--SFY 65
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 34/60 (56%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S G+S KD KLF+G +P + +K L+ F FG I E V+ DR TG +G F++
Sbjct: 2 SSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLT 61
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 36/59 (61%)
Query: 34 NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92
N Q+ +L+VG L ++ T+ LR F FG IE ++ D +TG+S+GYGF++ S
Sbjct: 18 NLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFS 76
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/56 (46%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 36 QQKDTTWT-KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
Q+KDT+ +FVG L T + ++ F+ FG I +A V+ D TGKS+GYGFVS
Sbjct: 8 QKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVS 63
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 32 VGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
VGN D L V GL +TT++ LRE FS +G I + ++ D+Q+ +SRG+ FV
Sbjct: 37 VGNRANPDPNCC-LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 93
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 34/46 (73%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+FVGGL +TT + ++ +F FG +++A+++ D+ T + RG+GFV+
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVT 47
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
S GN D L V GL +TT++ LRE FS +G I + ++ D+Q+ +SRG+ FV
Sbjct: 5 SSGNRANPDPNCC-LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 31/46 (67%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L+VG L ++ T+ LR F FG I+ V++ D TG+S+GYGF++
Sbjct: 8 LYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFIT 53
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
S GN D L V GL +TT++ LRE FS +G I + ++ D+Q+ +SRG+ FV
Sbjct: 5 SSGNRANPDPNCC-LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 28/48 (58%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T L V LP + T LR FS G++E A +I D+ G S GYGFV+
Sbjct: 5 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 52
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 28/48 (58%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T L V LP + T LR FS G++E A +I D+ G S GYGFV+
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 67
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 33/50 (66%), Gaps = 3/50 (6%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
+FVGG+ + +R F+ +G ++E +ITDR TG S+GYGFV SFY
Sbjct: 13 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFV--SFY 59
>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 = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 33/50 (66%), Gaps = 3/50 (6%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
+FVGG+ + +R F+ +G ++E +ITDR TG S+GYGFV SFY
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFV--SFY 58
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 28/48 (58%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T L V LP + T LR FS G++E A +I D+ G S GYGFV+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 50
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 27/46 (58%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
L++ GLP T K + + FS FG I + V+ D+ TG SRG F+
Sbjct: 90 NLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFI 135
>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 = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 31/47 (65%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
K+FVGGL T ++ +RE+F FG++E + D +T K RG+ F++
Sbjct: 3 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFIT 49
>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 = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 28/48 (58%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T L V LP + T LR FS G++E A +I D+ G S GYGFV+
Sbjct: 3 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 50
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
L++ GLP T K + + FS FG I + V+ D+ TG SRG F+
Sbjct: 91 LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFI 135
>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 = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 33/50 (66%), Gaps = 3/50 (6%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
+FVGG+ + +R F+ +G ++E +ITDR TG S+GYGFV SFY
Sbjct: 12 VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFV--SFY 58
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGL T +K L+ F G I E ++I DR T KSRG+ F++
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFIT 54
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 29/46 (63%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
++VG L Y T + ++E FS FG + +I DR+T K +G+GFV
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVE 49
>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 = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 27/47 (57%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
LFVG L + D++LR F F V+ D QTG SRGYGFVS
Sbjct: 3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVS 49
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 27/47 (57%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
LFVG L + D++LR F F V+ D QTG SRGYGFVS
Sbjct: 89 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVS 135
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L V +P + LR+ F +G IE ++ DR+T +SRGYGFV
Sbjct: 44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVK 90
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
LFV + Y TT+ LR F V+G I+ ++ +++GK RGY F+
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIE 150
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 32/45 (71%), Gaps = 3/45 (6%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
LFV GL TT+++L+E F G + A ++TDR+TG S+G+GFV
Sbjct: 18 LFVKGLSEDTTEETLKESFD--GSVR-ARIVTDRETGSSKGFGFV 59
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGLP + D ++E + FG ++ ++ D TG S+GY F
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCE 49
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug
Triplet Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 27 LTTPSVG--NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSR 84
LT S+G SQ++ LF+ LP D+ L + F FG++ A V D+QT S+
Sbjct: 8 LTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSK 67
Query: 85 GYGFVS 90
+GFVS
Sbjct: 68 CFGFVS 73
>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 = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGLP + D ++E + FG ++ ++ D TG S+GY F
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCE 162
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 28/50 (56%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92
T L V LP + T + F GDIE ++ D+ TG+S GYGFV+ S
Sbjct: 5 TNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYS 54
>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 = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGLP + D ++E + FG ++ ++ D TG S+GY F
Sbjct: 98 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCE 144
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 30/43 (69%)
Query: 47 VGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
V GL +TT++ LRE FS +G I + ++ D+Q+ +SRG+ FV
Sbjct: 17 VFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 59
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+GGLP + D ++E + FG ++ ++ D TG S+GY F
Sbjct: 96 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCE 142
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 29/52 (55%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92
+ T L V LP + T + F GDIE ++ D+ TG+S GYGFV+ S
Sbjct: 3 SKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYS 54
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
L+V GLP + K + + FS +G I + ++ D+ TG SRG GF+
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFI 137
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+ T L V LP + T + R F G+IE ++ D+ TG+S GYGFV+
Sbjct: 1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVN 50
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
L+V GLP T K L + FS +G I + ++ D+ TG SRG GF+
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFI 135
>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 = 6e-05, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
LFV + Y TT+ LR F V+G I+ ++ +++GK RGY F+
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFI 149
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 30/46 (65%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+FVGGL T ++ +RE+F FG++E + D +T K RG+ F++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFIT 47
>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 = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 13 VLGGADGLVGSLATL--TTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIE 70
+LGG + VG + + P + ++ + +++V + +D ++ F FG I+
Sbjct: 94 MLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIK 153
Query: 71 EAVVITDRQTGKSRGYGFV 89
A + D TGK +GYGF+
Sbjct: 154 SATLARDPTTGKHKGYGFI 172
Score = 32.0 bits (71), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 30/59 (50%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
S Q ++++VG + Y + ++R+ F+ FG I+ + D T K +G+ FV
Sbjct: 17 SAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFV 75
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 29/53 (54%)
Query: 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KD KLFVG +P ++ L+ F FG I E V+ DR TG +G F++
Sbjct: 11 KDHDAIKLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLT 63
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 27/51 (52%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
TT L+VGGL DK L F FGDI + + D +T K RG+ FV
Sbjct: 10 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 60
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 3/88 (3%)
Query: 6 ALGTAESV-LGGADGLVGSLATL--TTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREH 62
AL SV LGG + VG + + P + ++ + +++V + +D ++
Sbjct: 71 ALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSV 130
Query: 63 FSVFGDIEEAVVITDRQTGKSRGYGFVS 90
F FG I+ + D TGK +GYGF+
Sbjct: 131 FEAFGKIKSCTLARDPTTGKHKGYGFIE 158
Score = 32.7 bits (73), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 31/60 (51%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
++ Q+ +++VG + Y + ++R+ F+ FG I+ + D T K +G+ FV
Sbjct: 2 AMAQRQRALAIMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVE 61
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 27/51 (52%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
TT L+VGGL DK L F FGDI + + D +T K RG+ FV
Sbjct: 5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 55
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 27/51 (52%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
TT L+VGGL DK L F FGDI + + D +T K RG+ FV
Sbjct: 3 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 53
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 6 ALGTAESV-LGGADGLVGSLATL--TTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREH 62
AL SV LGG + VG + + P + ++ + +++V + +D ++
Sbjct: 70 ALEQXNSVXLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSV 129
Query: 63 FSVFGDIEEAVVITDRQTGKSRGYGFV 89
F FG I+ + D TGK +GYGF+
Sbjct: 130 FEAFGKIKSCTLARDPTTGKHKGYGFI 156
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+++VG + Y + ++R+ F+ FG I+ D T K +G+ FV
Sbjct: 13 CRVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFV 59
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 27/51 (52%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
TT L+VGGL DK L F FGDI + + D +T K RG+ FV
Sbjct: 61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 111
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTG--KSRGYGF 88
++ + Q D K+FVG +P ++K LRE F +G + E V+ DR +S+G F
Sbjct: 4 TLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCF 63
Query: 89 VSPSFY 94
V +FY
Sbjct: 64 V--TFY 67
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+G + T+ +R FS FG IEE ++ G SRG FV+
Sbjct: 109 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVT 154
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
LF+ LP TD L F FG++ A V D+QT S+ +GFVS
Sbjct: 41 CNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVS 88
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain
(Rbd2) Of Hu Antigen C (Huc)
Length = 85
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
L+V GLP + K + + FS +G I + ++ D+ TG SRG GF+
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFI 48
>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 = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 25/46 (54%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L+VGGL DK L F FGDI + + D +T K RG+ FV
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 50
>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 = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%)
Query: 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
++K+ ++VG + Y +T + L HFS G I ++ D+ +G +GY ++
Sbjct: 30 EKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYI 83
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L V LP + +++ L E FSVFG +E AVVI D G+ G G V
Sbjct: 99 LTVRNLPQYVSNELLEEAFSVFGQVERAVVIVD-DRGRPSGKGIVE 143
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T ++LFVG LP T++ +R+ F +G E + K +G+GF+
Sbjct: 20 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI------HKDKGFGFIR 64
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 4/53 (7%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTG--KSRGYGFVSPSFY 94
K+FVG +P ++K LRE F +G + E V+ DR +S+G FV +FY
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV--TFY 55
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
KLF+G + T+ +R FS FG IEE ++ G SRG FV+
Sbjct: 97 KLFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVT 142
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu
Rna
Length = 88
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 4/53 (7%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTG--KSRGYGFVSPSFY 94
K+FVG +P ++K LRE F +G + E V+ DR +S+G FV +FY
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV--TFY 55
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 26/45 (57%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
++V LP+ T+ L FS +G + + ++ D+ T KS+G F+
Sbjct: 19 VYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFI 63
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 36/63 (57%), Gaps = 5/63 (7%)
Query: 31 SVGNSQQ--KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQ--TGKSRGY 86
S G+S Q K T +K+ V +P+ + +RE FS FG++ + V + + TG RG+
Sbjct: 2 SSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGEL-KTVRLPKKMTGTGAHRGF 60
Query: 87 GFV 89
GFV
Sbjct: 61 GFV 63
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV---SPS 92
L++ GL TTD+ L + +G I I D+ T K +GYGFV SPS
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPS 58
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 23/47 (48%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L V LP TD+ L F G I ++ D +TG S GY FV
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFV 50
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 23/47 (48%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L V LP TD+ L F G I ++ D +TG S GY FV
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFV 50
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L+V LP TD L F +G I + ++ D+ TG+ RG FV
Sbjct: 90 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 136
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L+V LP TD L F +G I + ++ D+ TG+ RG FV
Sbjct: 14 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 60
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L+V LP TD L F +G I + ++ D+ TG+ RG FV
Sbjct: 101 TNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 147
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 22/47 (46%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L V LP TD+ L F G I + D +TG S GY FV
Sbjct: 15 TNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFV 61
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%)
Query: 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S Q T L V LP T + E FG +E ++ +TG+S+GYGF
Sbjct: 86 SVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAE 141
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%)
Query: 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S Q T L V LP T + E FG +E ++ +TG+S+GYGF
Sbjct: 88 SVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAE 143
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%)
Query: 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S Q T L V LP T + E FG +E ++ +TG+S+GYGF
Sbjct: 88 SVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAE 143
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 29/46 (63%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+FVG L T ++ F+ FG I +A V+ D TGKS+GYGFVS
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVS 54
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 1/81 (1%)
Query: 10 AESVLGGADGLVGSLATLTTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDI 69
A++ L L G + + + KLF+G + T+ +R FS FG I
Sbjct: 63 AQNALHNXKVLPGXHHPIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQI 122
Query: 70 EEAVVITDRQTGKSRGYGFVS 90
EE ++ G SRG FV+
Sbjct: 123 EECRILRG-PDGLSRGCAFVT 142
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 4/53 (7%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTG--KSRGYGFVSPSFY 94
K FVG +P ++K LRE F +G + E V+ DR +S+G FV +FY
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV--TFY 55
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 24/44 (54%)
Query: 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTG 81
+D T T L+VGGL T+ LR HF FG+I V+ +Q
Sbjct: 8 EDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCA 51
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%)
Query: 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L V L Y T+ +LR F +G + + + DR T +SRG+ FV
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV 94
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+ KLFVG L ++ +R F FG+IEE ++ G S+G FV
Sbjct: 14 SHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRG-PDGNSKGCAFV 61
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T L V L Y T+ +LR F +G + + + DR T +SRG+ FV
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV 117
>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 = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
KLF+ GLP+ T + L E G +++ ++T+R GK +G +V
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYV 63
>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 = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+++G +PY T++ + + S G + ++ D QTG+S+GY F+
Sbjct: 7 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFI 51
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+++G +PY T++ + + S G + ++ D QTG+S+GY F+
Sbjct: 5 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFI 49
>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 = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+++G +PY T++ + + S G + ++ D QTG+S+GY F+
Sbjct: 6 VYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFI 50
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
KLFVG L TD+ +R+ F FG I+E V+ G S+G FV
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRG-PDGTSKGCAFV 58
>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 = 34.7 bits (78), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 37/61 (60%), Gaps = 3/61 (4%)
Query: 33 GNSQQKDTTWTK---LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
G++++++ K L+VG L ++TT++ + E FS GDI++ ++ D+ + G+ FV
Sbjct: 27 GDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFV 86
Query: 90 S 90
Sbjct: 87 E 87
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+LFV L Y ++++ L + FS +G + E D T K +G+ FV+
Sbjct: 10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVT 56
>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 = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 7/58 (12%)
Query: 37 QKDTTWTK-----LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
Q+D + K +F+ L +K+L + FS FG+I V+ D + G S+GYGFV
Sbjct: 88 QRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD-ENG-SKGYGFV 143
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L+VG L T+ L E FS G I V D T +S GY +V+
Sbjct: 13 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 58
>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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 7/58 (12%)
Query: 37 QKDTTWTK-----LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
Q+D + K +F+ L +K+L + FS FG+I V+ D S+GYGFV
Sbjct: 93 QRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFV 148
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L+VG L T+ L E FS G I V D T +S GY +V+
Sbjct: 18 LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 63
>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 = 0.020, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 31 SVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
S G +++ D T + V L T + L+E F FG I + D+ TG+S+G+ F+S
Sbjct: 5 SSGPNRRADDNAT-IRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFIS 63
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDI-EEAVVITDRQTGKSRGYGFVS 90
+F+G L +K L + FS FG I + ++ D TG S+GY F++
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFIN 54
>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 = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
LFV G+ T++ + + F+ +G+I+ + DR+TG +GY V Y
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 59
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
KLF+G LP T++ +R F +G + E +I + YGFV
Sbjct: 8 MVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFV 47
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
LFV G+ T++ + + F+ +G+I+ + DR+TG +GY V Y
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 59
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 4/61 (6%)
Query: 31 SVGNSQQKDTTW--TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGF 88
S G+S + T + L+V L D+ LR+ FS FG I A V+ + G+S+G+GF
Sbjct: 2 SSGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMM--EGGRSKGFGF 59
Query: 89 V 89
V
Sbjct: 60 V 60
>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 = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
LFV G+ T++ + + F+ +G+I+ + DR+TG +GY V Y
Sbjct: 10 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 59
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T +LFVG LP T++ + F +G+ E + D RG+GF+
Sbjct: 20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIR 64
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
L V L +++ L + FS FG +E+AVV+ D G++ G GFV
Sbjct: 99 LTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVE 143
>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 = 33.5 bits (75), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
LFV G+ T++ + + F+ +G+I+ + DR+TG +GY V Y
Sbjct: 12 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 61
>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 = 0.030, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
LFV G+ T++ + + F+ +G+I+ + DR+TG +GY V Y
Sbjct: 25 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 74
>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 = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+F+ L +K+L + FS FG+I V+ D S+GYGFV
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFV 50
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+F+ L +K+L + FS FG+I V+ D S+GYGFV
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFV 56
>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 = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94
LFV G+ T++ + + F+ +G+I+ + DR+TG +GY V Y
Sbjct: 26 LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETY 75
>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 = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T ++LFVG LP T++ +R+ F +G E + D +G+GF+
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFI 56
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
T +L V +P+ D LR+ F FG I + +I + + S+G+GFV+
Sbjct: 14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVT 61
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
LFV + + ++E F +G+I+ + DR+TG S+GY V
Sbjct: 29 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 74
>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 = 0.045, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFG--DIEEAVVITDRQTGKSRGYGFV 89
L++G L + TTD+ L E G DI E +R G+S+G+ V
Sbjct: 4 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 50
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 32.7 bits (73), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
++Q++ T L++ LP ++ L FG + ++ D +G SRG GF
Sbjct: 18 AKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFA 71
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1
In Complex With Ugcaugu
Length = 109
Score = 32.7 bits (73), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 3/57 (5%)
Query: 34 NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
N++ K + +L V +P+ D LR+ F FG I + +I + + S+G+GFV+
Sbjct: 22 NTENK-SQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVT 75
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 32 VGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
V N ++ +F L + L + FS G + + +I+DR + +S+G +V
Sbjct: 15 VDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYV 72
>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 = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
LFV + + ++E F +G+I+ + DR+TG S+GY V
Sbjct: 75 LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 120
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+FV L Y K L+E FS+ G + A ++ D+ GKSRG G V+
Sbjct: 18 VFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVT 62
>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 = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 11/46 (23%), Positives = 24/46 (52%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
++VG + Y T + L HF G + ++ D+ +G +G+ ++
Sbjct: 8 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIE 53
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 11/45 (24%), Positives = 24/45 (53%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
++VG + Y T + L HF G + ++ D+ +G +G+ ++
Sbjct: 9 IYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYI 53
>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 = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 36/61 (59%), Gaps = 4/61 (6%)
Query: 33 GNSQQKDTTWTK---LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
G++++++ K L+VG L ++TT++ + E FS GDI++ ++ D+ G+ FV
Sbjct: 6 GDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKTAC-GFCFV 64
Query: 90 S 90
Sbjct: 65 E 65
>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 = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFG--DIEEAVVITDRQTGKSRGYGFV 89
L++G L + TTD+ L E G DI E +R G+S+G+ V
Sbjct: 71 LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 117
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
++VGGL ++ L E F G + + DR TG+ +GYGFV
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVE 63
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRG 85
T KL V L + +D ++E F+ FG +++A V DR +G+S G
Sbjct: 34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLG 77
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRG 85
T KL V L + +D ++E F+ FG +++A V DR +G+S G
Sbjct: 34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLG 77
>pdb|1X4G|A Chain A, Solution Structure Of Rrm Domain In Nucleolysin Tiar
Length = 109
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 10/75 (13%)
Query: 16 GADGLVGSLATLTTPSVGN-SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVV 74
G+ G G+ L V N S K+ T ++ GG+ TD+ +R+ FS FG I E V
Sbjct: 1 GSSGSSGNTKQLRFEDVVNQSSPKNCT---VYCGGIASGLTDQLMRQTFSPFGQIMEIRV 57
Query: 75 ITDRQTGKSRGYGFV 89
+ +GY FV
Sbjct: 58 FPE------KGYSFV 66
>pdb|1Z7Q|CC Chain c, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|DD Chain d, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|EE Chain e, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|FF Chain f, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|GG Chain g, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|HH Chain h, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|II Chain i, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|JJ Chain j, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|KK Chain k, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|LL Chain l, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|MM Chain m, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|NN Chain n, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|OO Chain o, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|PP Chain p, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
Length = 231
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 58 SLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95
+LRE+ S +E+ ++ D ++GK++G G SPS L
Sbjct: 144 ALREYLSARSTVEDKLLGVDAESGKTKGGGSQSPSLLL 181
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T KL V L + +D ++E F+ FG +++A V DR +G+S G V
Sbjct: 87 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADV 134
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 20 LVGSLATLTTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQ 79
+ G+ L P G +K+ L LPY T L+E VF D E +++ +
Sbjct: 72 VFGNEIKLEKPK-GKDSKKERDARTLLAKNLPYKVTQDELKE---VFEDAAEIRLVS--K 125
Query: 80 TGKSRGYGFVS 90
GKS+G ++
Sbjct: 126 DGKSKGIAYIE 136
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif In Trna Selenocysteine Associated Protein
Length = 104
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 45 LFVGGLPYHTTDKSLREHF-SVFGDIEEAVVITDRQTGKSRGYGFV 89
LFVG L D L E F V+ V+ D QTG S+GYGFV
Sbjct: 12 LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFV 56
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRG 85
KL V L + +D ++E F+ FG +++A V DR +G+S G
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLG 70
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRG 85
KL V L + +D ++E F+ FG +++A V DR +G+S G
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLG 71
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 8/47 (17%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVIT--DRQTGKSRGYGFV 89
L + L Y T+++L+E F E+A I Q GKS+GY F+
Sbjct: 18 LVLSNLSYSATEETLQEVF------EKATFIKVPQNQNGKSKGYAFI 58
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
L V L Y T+ SLR F +G + + + + T RG+ FV
Sbjct: 16 LKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFV 60
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 28.9 bits (63), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+++ GLP+ +K + + F +E+++ I GK+ G GFV
Sbjct: 28 VYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVE 73
>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein M
Length = 92
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
++FV LP+ T K L++ F+ G + A + + GKS+G G V
Sbjct: 9 CQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--ENGKSKGCGVV 53
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
++ D T +FVG L ++ L E F G + + + DR+ GK + +GFV
Sbjct: 12 QEEADRT---VFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVC 63
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
KLFVG L +++ + F FG I+E V+ G S+G FV
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG-PDGSSKGCAFV 61
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 34 NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+ Q+ + + T+LFV P + L E F FG ++E ++ G+ FV
Sbjct: 23 HRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVE 71
>pdb|1OLG|A Chain A, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLG|B Chain B, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLG|C Chain C, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLG|D Chain D, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLH|A Chain A, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLH|B Chain B, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLH|C Chain C, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1OLH|D Chain D, High-Resolution Solution Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
pdb|1SAE|A Chain A, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAE|B Chain B, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAE|C Chain C, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAE|D Chain D, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAF|A Chain A, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAF|B Chain B, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAF|C Chain C, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAF|D Chain D, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAK|A Chain A, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAK|B Chain B, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAK|C Chain C, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAK|D Chain D, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|1SAL|A Chain A, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAL|B Chain B, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAL|C Chain C, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|1SAL|D Chain D, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sad Structures)
pdb|3SAK|A Chain A, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|3SAK|B Chain B, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|3SAK|C Chain C, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
pdb|3SAK|D Chain D, High Resolution Solution Nmr Structure Of The
Oligomerization Domain Of P53 By Multi-Dimensional Nmr
(Sac Structures)
Length = 42
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 52 YHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRG 85
Y T RE F +F ++ EA+ + D Q GK G
Sbjct: 9 YFTLQIRGRERFEMFRELNEALELKDAQAGKEPG 42
>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain
In Heterogeneous Nuclear Ribonucleoprotein M
Length = 89
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
+FV LP+ T K L++ F+ G + A + + GKS+G G V
Sbjct: 8 IFVRNLPFDFTWKMLKDKFNECGHVLYADIKM--ENGKSKGCGVV 50
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 8/47 (17%)
Query: 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
TKL VG + T++ LR F +G + E ++ D Y FV
Sbjct: 11 TKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFV 49
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGK---SRGYGFV 89
LF+ L + TT+++L+ FS G I+ + + S G+GFV
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFV 55
>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN
Length = 116
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAV--------VITDRQTGKSRGYG 87
+Q ++ +FV GL + T +S+ ++F G I+ + TDR+TGK +G
Sbjct: 1 EQDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEA 60
Query: 88 FVS 90
VS
Sbjct: 61 TVS 63
>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of
Eukaryotic Initiation Factor 4b
Length = 104
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 46 FVGGLPYHTTDKSLREHF 63
F+G LPY T++S++E F
Sbjct: 19 FLGNLPYDVTEESIKEFF 36
>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna
Recognition Motif From Eukaryotic Translation
Initiation Factor 4b
Length = 100
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 46 FVGGLPYHTTDKSLREHF 63
F+G LPY T++S++E F
Sbjct: 23 FLGNLPYDVTEESIKEFF 40
>pdb|1UC2|A Chain A, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|1UC2|B Chain B, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|4DWQ|A Chain A, Rtcb-GmpMN2+ COMPLEX
pdb|4DWQ|B Chain B, Rtcb-GmpMN2+ COMPLEX
Length = 481
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 1 MLMPGALGTAESVLGGADG 19
+L+PG++GTA +L G +G
Sbjct: 375 VLIPGSMGTASYILAGTEG 393
>pdb|4DWR|B Chain B, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|A Chain A, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|C Chain C, Rna Ligase RtcbMN2+ COMPLEX
Length = 487
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 1 MLMPGALGTAESVLGGADG 19
+L+PG++GTA +L G +G
Sbjct: 375 VLIPGSMGTASYILAGTEG 393
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 24/50 (48%)
Query: 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89
T +F+ L + + +++L E FGD++ V+ T S+G F
Sbjct: 13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFA 62
>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 = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAV--------VITDRQTGKSRGYGFVS 90
+FV GL + T +S+ ++F G I+ + TDR+TGK +G VS
Sbjct: 16 IFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVS 69
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 8/52 (15%)
Query: 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVS 90
+ + T+LFV P + L E F FG ++E ++ G+ FV
Sbjct: 1 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN--------GFAFVE 44
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 25.4 bits (54), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVV 74
+FVG T+ LRE FS +GD+ + +
Sbjct: 8 VFVGRCTGDMTEDELREFFSQYGDVMDVFI 37
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
0.316 0.135 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,031,468
Number of Sequences: 62578
Number of extensions: 109936
Number of successful extensions: 403
Number of sequences better than 100.0: 152
Number of HSP's better than 100.0 without gapping: 136
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 236
Number of HSP's gapped (non-prelim): 178
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)