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= psy7053
(65 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 108 bits (271), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 50/62 (80%), Positives = 56/62 (90%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
MSYGRPPP +EGM SLKVDNLTYRT+PD LRRVFE+ G VGD+YIPRDR+T+ESRGFAFV
Sbjct: 35 MSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFV 94
Query: 61 RL 62
R
Sbjct: 95 RF 96
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 93.2 bits (230), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 42/53 (79%), Positives = 48/53 (90%)
Query: 10 IEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
+EGM SLKVDNLTYRT+PD LRRVFE+ G VGD+YIPRDR+T+ESRGFAFVR
Sbjct: 67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRF 119
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46
Splicing Factor
Length = 103
Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 39/61 (63%), Positives = 48/61 (78%)
Query: 2 SYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
S G P ++GM++LKVDNLTYRT+PD LRRVFE+ G VGD+YIPR+ T+ RGFAFVR
Sbjct: 2 SSGSSGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVR 61
Query: 62 L 62
Sbjct: 62 F 62
>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 = 43.1 bits (100), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/60 (38%), Positives = 32/60 (53%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
MS P E + L + L++ TT + LR FE+ G + D + RD T+ SRGF FV
Sbjct: 1 MSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
Score = 28.9 bits (63), Expect = 0.66, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 25 TTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
T LR FE+ G++ I I DR + + RGFAFV
Sbjct: 116 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 151
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 31/49 (63%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLLL 64
L V NL+Y ++ +DL ++F G + +++ P D T++ +GFAFV +
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMF 59
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 32/60 (53%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
MS P E + L + L++ TT + LR FE+ G + D + RD T+ SRGF FV
Sbjct: 1 MSKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V + T LR FE+ G++ I I DR + + RGFAFV
Sbjct: 109 VGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 151
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 30/46 (65%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLL 63
V NL + T +DL R+F + G+V + I +D+ TR+S+G AF+ L
Sbjct: 21 VSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFL 66
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 42.0 bits (97), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 33/55 (60%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
P R + +++V NL+ T DL+ +F G + IY+ +D+ T +S+GFAF+
Sbjct: 8 PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFI 62
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Daz-Associated Protein 1
Length = 105
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 28/47 (59%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
L V L + TT + LR F + GEV D I +D+ T +SRGF FV+
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF 65
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 41.2 bits (95), Expect = 2e-04, Method: Composition-based stats.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 2 SYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
S P E + L + L++ TT + LR FE+ G + D + RD T+ SRGF FV
Sbjct: 3 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 61
Score = 28.9 bits (63), Expect = 0.66, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 25 TTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
T LR FE+ G++ I I DR + + RGFAFV
Sbjct: 117 TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 152
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLL 63
+ L+++TT + LR F + GEV + + RD T+ SRGF FV +
Sbjct: 30 IGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFM 75
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 28/45 (62%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L V L+ TT DLR VF + G + D+ I D+ +R SRGFAFV
Sbjct: 49 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 93
>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 = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 2 SYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
S P E + L + L++ TT + LR FE+ G + D + RD T+ SRGF FV
Sbjct: 1 SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 59
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V + T LR FE+ G++ I I DR + + RGFAFV
Sbjct: 108 VGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 150
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain
Of Mouse Musashi1
Length = 77
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLL 63
+ L+++TT + LR F + GEV + + RD T+ SRGF FV +
Sbjct: 5 IGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFM 50
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 28/45 (62%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L V L+ TT DLR VF + G + D+ I D+ +R SRGFAFV
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 28/45 (62%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L V L+ TT DLR VF + G + D+ I D+ +R SRGFAFV
Sbjct: 18 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 28/45 (62%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L V L+ TT DLR VF + G + D+ I D+ +R SRGFAFV
Sbjct: 15 LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 59
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 27/43 (62%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V L++ T L +VF + G++ ++ + +DR T+ SRGF FV
Sbjct: 17 VGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFV 59
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%)
Query: 7 PPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
P E + L + L++ TT + LR FE+ G + D + RD T+ SRGF FV
Sbjct: 5 PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 58
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V + T LR FE+ G++ I I DR + + RGFAFV
Sbjct: 107 VGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 149
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%)
Query: 11 EGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
E + L + L++ TT + LR FE+ G + D + RD T+ SRGF FV
Sbjct: 4 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 53
Score = 29.3 bits (64), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V + T LR FE+ G++ I I DR + + RGFAFV
Sbjct: 102 VGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFV 144
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 6/45 (13%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
V NL T +D +R+FER GE +++I RD RGF F+RL
Sbjct: 27 VGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRL 65
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
Length = 124
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 15 SLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
S+ V N+ Y +T DL F CG + I I D+F+ +G+A++
Sbjct: 38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEF 85
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleaoproteins A2B1
Length = 116
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 27/43 (62%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+ L++ TT + LR +E+ G++ D + RD ++ SRGF FV
Sbjct: 32 IGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV 74
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The
Second Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 29/61 (47%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
MSY RP +L V NL T D L +F + G + I RD+ T RG AFV
Sbjct: 1 MSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 60
Query: 61 R 61
R
Sbjct: 61 R 61
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter
Pylori
Length = 90
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 31/50 (62%)
Query: 13 MVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
M ++ V NL Y T + ++ +F + G+V ++ + DR T++ +GF FV +
Sbjct: 1 MRNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEM 50
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 15 SLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
S+ V N+ Y T ++L F CG V + I D+F+ +GFA++
Sbjct: 8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEF 55
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 15 SLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
S+ V N+ Y T ++L F CG V + I D+F+ +GFA++
Sbjct: 7 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEF 54
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%)
Query: 10 IEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
++ L V L ++TT DL+ F GEV + + +D T S+GF FVR
Sbjct: 12 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRF 64
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
V L Y TT LR+ FE G++ + + DR T +SRG+ FV +
Sbjct: 22 VGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTM 66
>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 = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 29/45 (64%), Gaps = 6/45 (13%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
V NL T +++R++FE+ G+ G+++I +D +GF F+RL
Sbjct: 20 VGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRL 58
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 25 TTPDD--LRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
TT D+ LR++FER G + + I DR TR+SRG+ FV+
Sbjct: 52 TTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVK 90
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 29/61 (47%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+SY RP +L V NL T D L +F + G + I RD+ T RG AFV
Sbjct: 77 VSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 136
Query: 61 R 61
R
Sbjct: 137 R 137
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+ L++ TT DL+ F + GEV D + D T SRGF FV
Sbjct: 4 IGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFV 46
>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 = 35.8 bits (81), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 29/61 (47%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+SY RP +L V NL T D L +F + G + I RD+ T RG AFV
Sbjct: 88 VSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 147
Query: 61 R 61
R
Sbjct: 148 R 148
>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 = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+ L + TT D+LR F + G V D+ I +D T SRGF F+
Sbjct: 8 IGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFL 50
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 27 PDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
P + F + G + D + D+ T +SRGF FV
Sbjct: 101 PKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFV 134
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V L+ TT +D++ FE+ G+V D + D+ T RGF FV
Sbjct: 4 VGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFV 46
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%)
Query: 11 EGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
G L V +L + T D LR +FE G++ +I + +D T S+G+ F+
Sbjct: 3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFI 52
>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 = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 12 GMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
G +L V+ L T D+LR +F GEV + RD+ S G+ FV
Sbjct: 3 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 52
>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 = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V L++ T+ DL+ F + GEV D I D T SRGF F+
Sbjct: 16 VGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFI 58
>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 = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%)
Query: 12 GMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
G +L V+ L T D+LR +F GEV + RD+ S G+ FV
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFV 49
Score = 32.7 bits (73), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+SY RP + +L + L T D+ +F R G + + + D+ T SRG AF+
Sbjct: 76 VSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFI 135
Query: 61 R 61
R
Sbjct: 136 R 136
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 34.3 bits (77), Expect = 0.016, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 30/47 (63%), Gaps = 6/47 (12%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
L V NL T +++R++FE+ G+ G+++I +D +GF F+RL
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRL 65
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 12 GMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
G +L V+ L T D+LR +F GEV + RD+ S G+ FV
Sbjct: 1 GRTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 50
Score = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+SY RP + +L + L T D+ +F R G + + + D+ T SRG AF+
Sbjct: 76 VSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFI 135
Query: 61 R 61
R
Sbjct: 136 R 136
>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 = 33.5 bits (75), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%)
Query: 14 VSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
+L V+ L T D+LR +F GEV + RD+ S G+ FV
Sbjct: 20 TNLIVNYLPQNXTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVN 67
>pdb|2CQ4|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 23
Length = 114
Score = 33.1 bits (74), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%)
Query: 20 NLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L R P DL F G+V D+ I DR +R S+G A+V
Sbjct: 32 QLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYV 72
>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 = 32.7 bits (73), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%)
Query: 14 VSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+L V NL++ TT + + +F + G++ I + D+ + + GF FV
Sbjct: 40 CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFV 86
>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 = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 14 VSLKVDNLTYRTTPDDLRRVFERCG--EVGDIYIPRDRFTRESRGFAFV 60
++L + NLT+ TT +DL G ++ +I +R +S+GFA V
Sbjct: 2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 50
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%), Gaps = 4/51 (7%)
Query: 15 SLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLLLF 65
+L + NL+Y T + L+ VFE+ I +P+++ + S+G+AF+ F
Sbjct: 17 TLVLSNLSYSATEETLQEVFEK---ATFIKVPQNQNGK-SKGYAFIEFASF 63
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 14 VSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLL 63
+L V+ L T ++ R +F GE+ + RD+ T +S G+ FV +
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYI 52
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+SY RP +L V L T +L ++F + G + I D+ T SRG F+
Sbjct: 76 VSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFI 135
Query: 61 R 61
R
Sbjct: 136 R 136
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 12 GMVSLK----VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLLL 64
GM + K V L L F G++ DI IP D T + RGFAFV L
Sbjct: 7 GMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 63
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%)
Query: 12 GMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
G + L V +L + T D LR +FE G + I + D T S+G+ F+
Sbjct: 25 GPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFI 73
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain
(Rbd1) Of Hu Antigen C (Huc)
Length = 89
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 27/52 (51%)
Query: 10 IEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
++ +L V+ L T D+ + +F G++ + RD+ T +S G+ FV
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVN 52
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With
The Au-Rich Element
Length = 174
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 27/52 (51%)
Query: 10 IEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
++ +L V+ L T D+ + +F G++ + RD+ T +S G+ FV
Sbjct: 1 MDSKTNLIVNYLPQNMTQDEFKSLFGSIGDIESCKLVRDKITGQSLGYGFVN 52
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%)
Query: 1 MSYGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+SY RP +L V L + ++ ++F + G + I D+ T SRG F+
Sbjct: 78 VSYARPSSASIRDANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFI 137
Query: 61 R 61
R
Sbjct: 138 R 138
>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 = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 19/35 (54%)
Query: 30 LRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLLL 64
L F G++ DI IP D T + RGFAFV L
Sbjct: 24 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 58
>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 = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 22/49 (44%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLLL 64
L V L L F G++ DI IP D T + RGFAFV L
Sbjct: 5 LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 53
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 38 GEVGDIYIPRDRFTRESRGFAFVRLLL 64
G++ DI IP D T + RGFAFV L
Sbjct: 88 GDITDIQIPLDYETEKHRGFAFVEFEL 114
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 19/35 (54%)
Query: 30 LRRVFERCGEVGDIYIPRDRFTRESRGFAFVRLLL 64
L F G++ DI IP D T + RGFAFV L
Sbjct: 22 LHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 56
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14
Complex
Length = 110
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V ++ D+++ F GE+ +I++ DR T S+G+A V
Sbjct: 20 PQRSVEGWI-LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVE 74
>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 = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V L+ T + +R F GEV I +P D T + RGF F+
Sbjct: 6 VGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI 48
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain
Of Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V L+ T + +R F GEV I +P D T + RGF F+
Sbjct: 4 VGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFI 46
>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 = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%)
Query: 3 YGRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+ P + + +L V + Y TT LRR FE G + I++ + + + RG+AF+
Sbjct: 92 HNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFI 149
>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 = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
P +EG + L V ++ D+++ F GE+ +I++ DR T S+G+A V
Sbjct: 66 PQRSVEGWI-LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALV 119
>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 = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 4 GRPPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
GR ++ +L NL++ T D+L+ VFE E+ + +D +S+G A++
Sbjct: 90 GRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEI--RLVSQD---GKSKGIAYIE 142
>pdb|2LKZ|A Chain A, Solution Structure Of The Second Rrm Domain Of Rbm5
Length = 95
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 19/24 (79%)
Query: 39 EVGDIYIPRDRFTRESRGFAFVRL 62
V +I + +D+ T+++RGFAFV+L
Sbjct: 37 AVNNIRLIKDKQTQQNRGFAFVQL 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 = 29.3 bits (64), Expect = 0.51, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 13 MVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
M + V ++ Y D +R+ F G + I + D T + +GFAFV
Sbjct: 13 MCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFV 60
Score = 28.9 bits (63), Expect = 0.73, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 28 DDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
DD++ VFE G++ + RD T + +G+ F+
Sbjct: 125 DDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFI 157
>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 = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V + T +D+ F GE+ +I++ DR T +G+ V
Sbjct: 1 PQRSVEGWI-LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 55
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 29 DLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
DL+ +FE G++ ++ + +DRFT +G AF+
Sbjct: 29 DLKPLFEEFGKIYELTVLKDRFTGMHKGCAFL 60
>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 = 29.3 bits (64), Expect = 0.56, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 13 MVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
M + V ++ Y D +R+ F G + I + D T + +GFAFV
Sbjct: 28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFV 75
Score = 29.3 bits (64), Expect = 0.63, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 28 DDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
DD++ VFE G++ + RD T + +G+ F+
Sbjct: 140 DDIKSVFEAFGKIKSATLARDPTTGKHKGYGFI 172
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1
In Complex With Ugcaugu
Length = 109
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L V N+ +R DLR++F + G++ D+ I + R S+GF FV
Sbjct: 32 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFV 74
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V + T +D+ F GE+ +I++ DR T +G+ V
Sbjct: 1 PQRSVEGWI-LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 55
>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 = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 14 VSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+L V NL++ TT + + +F + G++ I + D+ + + GF FV
Sbjct: 19 CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM-KTACGFCFV 64
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 16 LKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
L V N+ +R DLR++F + G++ D+ I + R S+GF FV
Sbjct: 18 LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNE--RGSKGFGFV 60
>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 = 28.9 bits (63), Expect = 0.76, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 28 DDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
DD++ VFE G++ + RD T + +G+ F+
Sbjct: 124 DDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFI 156
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V ++ Y D +R+ F G + I D T + +GFAFV
Sbjct: 17 VGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFV 59
>pdb|2XB2|D Chain D, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core
Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How
The Ejc Is Bridged To The Nmd Machinery
Length = 90
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V + T +D+ F GE+ +I++ DR T +G+ V
Sbjct: 1 PQRSVEGWI-LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 55
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V + T +D+ F GE+ +I++ DR T +G+ V
Sbjct: 3 PQRSVEGWI-LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 57
>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 = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V + T +D+ F GE+ +I++ DR T +G+ V
Sbjct: 16 PQRSVEGWI-LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 70
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 28.5 bits (62), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 12 GMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
G + V T T D+LR F + G+V D++IP+ R FAFV
Sbjct: 4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF-----RAFAFVTF 49
>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 = 28.5 bits (62), Expect = 0.96, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 14 VSLKVDNLTYRTTPDDLRRVFERCG--EVGDIYIPRDRFTRESRGFAFV 60
++L + NLT+ TT +DL G ++ +I +R +S+GFA V
Sbjct: 69 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALV 117
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 15 SLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVRL 62
+L NL Y+ T D+L+ VFE E+ + +D +S+G A++
Sbjct: 95 TLLAKNLPYKVTQDELKEVFEDAAEI--RLVSKD---GKSKGIAYIEF 137
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 11 EGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
GM L + NL+ T DDLR++F GD +P G+AFV
Sbjct: 6 SGMNKLYIGNLSPAVTADDLRQLF------GDRKLPLAGQVLLKSGYAFV 49
>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 = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 25 TTPDDLRRVFERCG-EVGDIYIPRDRFTRESRGFAFV 60
T DD+R + G + ++ + R++ + +SRGFAFV
Sbjct: 13 ATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFV 49
>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 = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 15 SLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
+L V + Y TT LRR FE G + I++ + + + RG+AF+
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFI 149
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 6 PPPRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
P +EG + L V + T +D+ F GE+ +I++ DR T +G+ V
Sbjct: 17 PQRSVEGWI-LFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVE 71
>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 = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 29 DLRRVFERCGEVGDIYIPRDRFTR--ESRGFAFV 60
DLR +FE+ G V +I + RDR +S+G FV
Sbjct: 19 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 52
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 26 TPDDLRRVFERCGEVGDIYIPRDRFTR--ESRGFAFV 60
+ DLR +FE+ G V +I + RDR +S+G FV
Sbjct: 16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 52
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 29 DLRRVFERCGEVGDIYIPRDRFTR--ESRGFAFV 60
DLR +FE+ G V +I + RDR +S+G FV
Sbjct: 31 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 64
>pdb|3NS5|A Chain A, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
pdb|3NS5|B Chain B, Crystal Structure Of The Rna Recognition Motif Of Yeast
Eif3b Residues 76-161
Length = 91
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 30 LRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
L +F + G+V ++ P D T +++GF FV
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVE 60
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 8 PRIEGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRF-TRESRGFAFV 60
P+ + + V N+ ++ ++R +F GE+ + +P+ T RGF FV
Sbjct: 10 PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFV 63
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 29 DLRRVFERCGEVGDIYIPRDRFTR--ESRGFAFV 60
DLR +FE+ G V +I + RDR +S+G FV
Sbjct: 19 DLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 52
>pdb|3NS6|A Chain A, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
pdb|3NS6|B Chain B, Crystal Structure Of Hte Rna Recognition Motif Of Yeast
Eif3b Residues 76-170
Length = 100
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 30 LRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
L +F + G+V ++ P D T +++GF FV
Sbjct: 29 LTSLFSKAGKVVNMEFPIDEATGKTKGFLFVE 60
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
V T T ++L++ F + GEV D++IP + R FAFV
Sbjct: 16 VGRCTEDMTAEELQQFFCQYGEVVDVFIP-----KPFRAFAFV 53
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 18 VDNLTYRTTPDDLRRVFERCGEVGDIYIPRDRFTRESRGFAFVR 61
V L + + DD+RR+FE G + + I R S+G AFV+
Sbjct: 20 VGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVK 62
>pdb|3QM3|A Chain A, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|B Chain B, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|C Chain C, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|D Chain D, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|E Chain E, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|F Chain F, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|G Chain G, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|H Chain H, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
Length = 357
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 10/34 (29%), Positives = 20/34 (58%)
Query: 11 EGMVSLKVDNLTYRTTPDDLRRVFERCGEVGDIY 44
+G+ + +DN T P+D+ +ER G++ D +
Sbjct: 181 DGVDNTGIDNSKLYTQPEDVALAYERLGKISDKF 214
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In
Rna-Binding Protein 30
Length = 90
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 12 GMVSLKVDNLTYRTTPDDLRRVFERCGEV 40
GMV L + NL T ++R +FE+ G+V
Sbjct: 7 GMVKLFIGNLPREATEQEIRSLFEQYGKV 35
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
In Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 29 DLRRVFERCGEVGDIYIPRDRFTRESRGFAFV 60
DL+ +FE G + ++ + +DR T +G AF+
Sbjct: 31 DLKPLFEEFGRIYELTVLKDRLTGLHKGCAFL 62
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
0.329 0.148 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,000,758
Number of Sequences: 62578
Number of extensions: 64988
Number of successful extensions: 278
Number of sequences better than 100.0: 95
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 189
Number of HSP's gapped (non-prelim): 109
length of query: 65
length of database: 14,973,337
effective HSP length: 36
effective length of query: 29
effective length of database: 12,720,529
effective search space: 368895341
effective search space used: 368895341
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)