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= 024094
(272 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER
Length = 104
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 31/55 (56%), Positives = 43/55 (78%)
Query: 41 KYGEIESLNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 95
KYGE+E +N+CDNL DH+VGNVYV+FR EE A +A+ L+ R++ G+PI + SP
Sbjct: 50 KYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP 104
>pdb|2DIT|A Chain A, Solution Structure Of The Rrm_1 Domain Of Hiv Tat
Specific Factor 1 Variant
Length = 112
Score = 35.0 bits (79), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 40 NKYGEIESLNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPI 89
+K+G+I L + D H G V FR+ E+A +++L GR++ GR I
Sbjct: 48 SKFGQIRKLLLFDR---HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI 94
>pdb|2A3J|A Chain A, Structure Of Urndesign, A Complete Computational Redesign
Of Human U1a Protein
Length = 127
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 48 LNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
L+I +L+D G Y+ F +E A +++ G + G P+++ FS
Sbjct: 61 LDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFS 107
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 41 KYGEIESLNI-CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV 96
+YGEI+++++ D ++ G V++ ++A A++ L+G+ G+PI VD+ V
Sbjct: 46 EYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 102
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 41 KYGEIESLNI-CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV 96
+YGEI+++++ D ++ G V++ ++A A++ L+G+ G+PI VD+ V
Sbjct: 45 EYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 101
>pdb|1OPI|A Chain A, Solution Structure Of The Third Rna Recognition Motif
(Rrm) Of U2af65 In Complex With An N-Terminal Sf1
Peptide
pdb|2M0G|B Chain B, Structure, Phosphorylation And U2af65 Binding Of The
Nterminal Domain Of Splicing Factor 1 During 3 Splice
Site Recognition
Length = 104
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 40 NKYGEIESLNI---CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
+KYG ++S+ I D + G ++V+F +A++ L+GR +A R ++ +
Sbjct: 36 SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYC 93
>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 = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 43 GEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
G I S+ +C D + +G YV F++ A RAL +++ G+P+ + +S
Sbjct: 40 GPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS 92
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At
2.2 A Resolution
Length = 89
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 41 KYGEIESLNI-CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV 96
+YGEI+++++ D ++ G V++ ++A A++ L+G+ G+PI VD+ V
Sbjct: 30 EYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 86
>pdb|1O0P|A Chain A, Solution Structure Of The Third Rna Recognition Motif
(Rrm) Of U2af65 In Complex With An N-Terminal Sf1
Peptide
Length = 104
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 40 NKYGEIESLNI---CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
+KYG ++S+ I D + G ++V+F +A++ L+GR +A R ++ +
Sbjct: 36 SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYC 93
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 41 KYGEIESLNI-CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV 96
+YGEI+++++ D ++ G V++ ++A A++ L+G+ G+PI VD+ V
Sbjct: 32 EYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 88
>pdb|3S6E|A Chain A, Crystal Structure Of A Rna Binding Motif Protein 39
(Rbm39) From Mus Musculus At 0.95 A Resolution
pdb|3S6E|B Chain B, Crystal Structure Of A Rna Binding Motif Protein 39
(Rbm39) From Mus Musculus At 0.95 A Resolution
Length = 114
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 40 NKYGEIESLNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDF 99
NK+G + + + N A GNVYV+ A A+ +L GR++AG+ I + P+ +
Sbjct: 39 NKHGGVIHIYVDKNSAQ---GNVYVKCPSIAAAIAAVNALHGRWFAGKXITAAYVPLPTY 95
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At
3.2 A Resolution
Length = 109
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 41 KYGEIESLNI-CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV 96
+YGEI+++++ D ++ G V++ ++A A++ L+G+ G+PI VD+ V
Sbjct: 30 EYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 86
>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 = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 41 KYGEIESLNI-CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV 96
+YGEI+++++ D ++ G V++ ++A A++ L+G+ G+PI VD+ V
Sbjct: 30 EYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV 86
>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 = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 43 GEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
G I S+ +C D + +G YV F++ A RAL +++ G+P+ + +S
Sbjct: 35 GPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS 87
>pdb|3DXB|A Chain A, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|B Chain B, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|C Chain C, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|D Chain D, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|E Chain E, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|F Chain F, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|G Chain G, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|H Chain H, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
Length = 222
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 9/36 (25%), Positives = 25/36 (69%)
Query: 57 HMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD 92
++ ++V+F + +A+++L+GR++AGR ++ +
Sbjct: 173 EIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAE 208
>pdb|3UE2|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.23 A Resolution
pdb|3US5|A Chain A, Crystal Structure Of A Rna-Binding Domain Of A Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.38 A Resolution
Length = 118
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 9/35 (25%), Positives = 25/35 (71%)
Query: 58 MVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD 92
++ ++V+F + +A+++L+GR++AGR ++ +
Sbjct: 70 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAE 104
>pdb|2DNY|A Chain A, Solution Structure Of The Third Rna Binding Domain Of Fbp-
Interacting Repressor, Siahbp1
Length = 119
Score = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 9/37 (24%), Positives = 25/37 (67%)
Query: 57 HMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF 93
++ ++V+F + +A+++L+GR++AGR ++ +
Sbjct: 64 EIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEV 100
>pdb|2LQ5|A Chain A, Nmr Structure Of The Rna Binding Motif 39 (Rbm39) From
Mus Musculus
Length = 113
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 40 NKYGEIESLNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDF 99
NK+G + + + N A GNVYV+ A A+ +L GR++AG+ I + P+ +
Sbjct: 38 NKHGGVIHIYVDKNSAQ---GNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTY 94
>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 = 0.72, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 42 YGEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIV 91
+G IES+ + D+ G ++ F + E A +AL+ L+G AGRP+ V
Sbjct: 50 FGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKV 100
>pdb|3V4M|A Chain A, Crystal Structure Of A Rna Binding Domain Of A U2 Small
Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af)
From Mus Musculus At 1.80 A Resolution
pdb|3V4M|B Chain B, Crystal Structure Of A Rna Binding Domain Of A U2 Small
Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af)
From Mus Musculus At 1.80 A Resolution
Length = 105
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 40 NKYGEIESLNI---CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
+KYG ++S+ I D + G ++V+F +A + L+GR +A R ++ +
Sbjct: 37 SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAXQGLTGRKFANRVVVTKYC 94
>pdb|4FXW|A Chain A, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
Domain
pdb|4FXW|C Chain C, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
Domain
Length = 106
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 40 NKYGEIESLNI---CDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
+KYG ++S+ I D + G ++V+F +A + L+GR +A R ++ +
Sbjct: 38 SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAXQGLTGRKFANRVVVTKYC 95
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 63 YVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTD 98
+V F E A A+K+L+G+ G PI V + D
Sbjct: 55 FVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD 90
>pdb|2PE8|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 (free
Form)
pdb|2PEH|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
pdb|2PEH|B Chain B, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
Length = 105
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 62 VYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR 100
++++F E A +A+ L+GR++ GR + F + FR
Sbjct: 59 IFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFR 97
>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 = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 43 GEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
GE+ES + D +A H +G +V + + A RA+ +L+G + I V ++
Sbjct: 44 GEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA 96
>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 = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 40 NKYGEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
+ GE+ES + D +A H +G +V + + A RA+ +L+G + I V ++
Sbjct: 24 SSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA 79
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 40 NKYGEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
+ GE+ES + D +A H +G +V + + A RA+ +L+G + I V ++
Sbjct: 24 SSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA 79
>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 = 28.5 bits (62), Expect = 4.2, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 43 GEIESLN-ICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
GE+ES I D +A H +G +V + + A RA+ +L+G + I V ++
Sbjct: 29 GEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA 81
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 42 YGEIESLNIC-DNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIV 91
+G+I+++ + D+ G ++ F + E A RAL+ L+G AGRP+ V
Sbjct: 29 FGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRV 79
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 42 YGEIESLNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
YG+++ + I N + N VQ + QA A+ L+G G+PI + S
Sbjct: 59 YGDVQRVKILFNKKE----NALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS 107
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 42 YGEIESLNICDNLADHMVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 94
YG+++ + I N + N VQ + QA A+ L+G G+PI + S
Sbjct: 28 YGDVQRVKILFNKKE----NALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS 76
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
0.317 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,728,004
Number of Sequences: 62578
Number of extensions: 144386
Number of successful extensions: 395
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 374
Number of HSP's gapped (non-prelim): 42
length of query: 272
length of database: 14,973,337
effective HSP length: 97
effective length of query: 175
effective length of database: 8,903,271
effective search space: 1558072425
effective search space used: 1558072425
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: 51 (24.3 bits)