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= 047807
(169 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CA9|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
Length = 192
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 13 YIFKIKSFNLLADSTVDGFESGVFE----SGGYYWCVCTRLVFYPKGKGSSDHLSLYLKI 68
+I+KI F V G +F + Y + +C R+ G G HLSL+ +
Sbjct: 45 FIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVV 104
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYL 98
+ + W N L + DQ ++++
Sbjct: 105 MKGPNDALLRWPFNQKVTLMLLDQNNREHV 134
>pdb|1CZZ|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
pdb|1CZZ|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
pdb|1CZZ|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
Length = 187
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 13 YIFKIKSFNLLADSTVDGFESGVFE----SGGYYWCVCTRLVFYPKGKGSSDHLSLYLKI 68
+I+KI F V G +F + Y + +C R+ G G HLSL+ +
Sbjct: 40 FIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVV 99
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYL 98
+ + W N L + DQ ++++
Sbjct: 100 MKGPNDALLRWPFNQKVTLMLLDQNNREHV 129
>pdb|1CZY|A Chain A, Crystal Structure Of The Complex Between The Traf Domain
Of Human Traf2 And An Lmp1 Binding Peptide
pdb|1CZY|B Chain B, Crystal Structure Of The Complex Between The Traf Domain
Of Human Traf2 And An Lmp1 Binding Peptide
pdb|1CZY|C Chain C, Crystal Structure Of The Complex Between The Traf Domain
Of Human Traf2 And An Lmp1 Binding Peptide
pdb|1D0A|A Chain A, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|B Chain B, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|C Chain C, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|D Chain D, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|E Chain E, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|F Chain F, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D01|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
Length = 168
Score = 31.2 bits (69), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 13 YIFKIKSFNLLADSTVDGFESGVFE----SGGYYWCVCTRLVFYPKGKGSSDHLSLYLKI 68
+I+KI F V G +F + Y + +C R+ G G HLSL+ +
Sbjct: 21 FIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVV 80
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYL 98
+ + W N L + DQ ++++
Sbjct: 81 MKGPNDALLRWPFNQKVTLMLLDQNNREHV 110
>pdb|1CA4|A Chain A, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|B Chain B, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|C Chain C, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|D Chain D, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|E Chain E, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|F Chain F, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1D00|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|G Chain G, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|H Chain H, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D0J|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
Length = 168
Score = 31.2 bits (69), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 13 YIFKIKSFNLLADSTVDGFESGVFE----SGGYYWCVCTRLVFYPKGKGSSDHLSLYLKI 68
+I+KI F V G +F + Y + +C R+ G G HLSL+ +
Sbjct: 21 FIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVV 80
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYL 98
+ + W N L + DQ ++++
Sbjct: 81 MKGPNDALLRWPFNQKVTLMLLDQNNREHV 110
>pdb|1QSC|A Chain A, Crystal Structure Of The Traf Domain Of Traf2 In A Complex
With A Peptide From The Cd40 Receptor
pdb|1QSC|B Chain B, Crystal Structure Of The Traf Domain Of Traf2 In A Complex
With A Peptide From The Cd40 Receptor
pdb|1QSC|C Chain C, Crystal Structure Of The Traf Domain Of Traf2 In A Complex
With A Peptide From The Cd40 Receptor
Length = 191
Score = 30.8 bits (68), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 4/90 (4%)
Query: 13 YIFKIKSFNLLADSTVDGFESGVFE----SGGYYWCVCTRLVFYPKGKGSSDHLSLYLKI 68
+I+KI F V G +F + Y + C R+ G G HLSL+ +
Sbjct: 44 FIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKXCLRIYLNGDGTGRGTHLSLFFVV 103
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYL 98
+ + W N L + DQ ++++
Sbjct: 104 XKGPNDALLRWPFNQKVTLXLLDQNNREHV 133
>pdb|1F3V|B Chain B, Crystal Structure Of The Complex Between The N-Terminal
Domain Of Tradd And The Traf Domain Of Traf2
Length = 171
Score = 30.4 bits (67), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 4/90 (4%)
Query: 13 YIFKIKSFNLLADSTVDGFESGVFE----SGGYYWCVCTRLVFYPKGKGSSDHLSLYLKI 68
+I+KI F V G +F + Y + C R+ G G HLSL+ +
Sbjct: 24 FIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKXCLRIYLNGDGTGRGTHLSLFFVV 83
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYL 98
+ + W N L + DQ ++++
Sbjct: 84 XKGPNDALLRWPFNQKVTLXLLDQNNREHV 113
>pdb|1O5F|L Chain L, Dissecting And Designing Inhibitor Selectivity
Determinants At The S1 Site Using An Artificial Ala190
Protease (Ala190 Upa)
pdb|1P57|A Chain A, Extracellular Domain Of Human Hepsin
pdb|1O5E|L Chain L, Dissecting And Designing Inhibitor Selectivity
Determinants At The S1 Site Using An Artificial Ala190
Protease (ala190 Upa)
Length = 114
Score = 30.0 bits (66), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAEL 128
D+ YP S + RL V+D+ + + ++S R E+GF + LT +EL
Sbjct: 2 DQEPLYPVQVSSADA--RLMVFDKTEGTWRLLCSSRSNARVAGLSCEEMGFLRALTHSEL 59
Query: 129 NQHLKG 134
+ G
Sbjct: 60 DVRTAG 65
>pdb|1Z8G|A Chain A, Crystal Structure Of The Extracellular Region Of The
Transmembrane Serine Protease Hepsin With Covalently
Bound Preferred Substrate
Length = 372
Score = 29.6 bits (65), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAEL 128
D+ YP S + RL V+D+ + + ++S R E+GF + LT +EL
Sbjct: 2 DQEPLYPVQVSSADA--RLMVFDKTEGTWRLLCSSRSNARVAGLSCEEMGFLRALTHSEL 59
Query: 129 NQHLKG 134
+ G
Sbjct: 60 DVRTAG 65
>pdb|3T2N|A Chain A, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
pdb|3T2N|B Chain B, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
Length = 372
Score = 29.6 bits (65), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 69 DESNSYPNAAWSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAEL 128
D+ YP S + RL V+D+ + + ++S R E+GF + LT +EL
Sbjct: 2 DQEPLYPVQVSSADA--RLMVFDKTEGTWRLLCSSRSNARVAGLSCEEMGFLRALTHSEL 59
Query: 129 NQHLKGYLLNNTCTF 143
+ G N T F
Sbjct: 60 DVRTAG--ANGTSGF 72
>pdb|2A8N|A Chain A, Biochemical And Structural Studies Of A-To-I Editing By
Trna:a34 Deaminases At The Wobble Position Of Transfer
Rna
pdb|2A8N|B Chain B, Biochemical And Structural Studies Of A-To-I Editing By
Trna:a34 Deaminases At The Wobble Position Of Transfer
Rna
Length = 144
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 5/51 (9%)
Query: 82 NVCYRLFVYDQIRKDYLAVQDAK-----SGVRTFDQQTSELGFDKFLTLAE 127
+C + +IR+ Y QD K SGVR F Q T D + LAE
Sbjct: 84 TMCAAAISFARIRRLYYGAQDPKGGAVESGVRFFSQPTCHHAPDVYSGLAE 134
>pdb|1GXS|B Chain B, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
pdb|1GXS|D Chain D, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
Length = 158
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 7/69 (10%)
Query: 8 LPPADYIFKIKSFNLL----ADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLS 63
LPP D S N L + + SG+ E Y W VC+ +F G+ + D L
Sbjct: 1 LPPYDPCAVFNSINYLNLPEVQTALHANVSGIVE---YPWTVCSNTIFDQWGQAADDLLP 57
Query: 64 LYLKIDESN 72
+Y ++ ++
Sbjct: 58 VYRELIQAG 66
>pdb|4GJH|A Chain A, Crystal Structure Of The Traf Domain Of Traf5
pdb|4GJH|B Chain B, Crystal Structure Of The Traf Domain Of Traf5
pdb|4GJH|C Chain C, Crystal Structure Of The Traf Domain Of Traf5
Length = 178
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 30/137 (21%), Positives = 51/137 (37%), Gaps = 10/137 (7%)
Query: 14 IFKIKSFNLLADSTVDGFESGVFESGGYY----WCVCTRLVFYPKGKGSSDHLSLYLKID 69
I+K+ + + V+G VF Y + +C R G G HLSLY +
Sbjct: 27 IWKVTDYRVKKREAVEGHTVSVFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVM 86
Query: 70 ESNSYPNAAWSVNVCYRLFVYDQIRKDYLAVQDAKS--GVRTFDQQTSEL----GFDKFL 123
W L + DQ K V+ K+ +F + E+ G +F+
Sbjct: 87 RGEFDSLLQWPFRQRVTLMLLDQSGKKNHIVETFKADPNSSSFKRPDGEMNIASGCPRFV 146
Query: 124 TLAELNQHLKGYLLNNT 140
+ + L Y+ ++T
Sbjct: 147 SHSTLENSKNTYIKDDT 163
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 23/44 (52%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKF 122
W ++V Y+ F I+ + V+D +GV+T + + F+K
Sbjct: 644 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKI 687
>pdb|1RF3|A Chain A, Structurally Distinct Recognition Motifs In Lymphotoxin-B
Receptor And Cd40 For Traf-Mediated Signaling
Length = 200
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 31/83 (37%), Gaps = 4/83 (4%)
Query: 14 IFKIKSFNLLADSTVDG----FESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKID 69
I+KI+ + V G S F +G + + +C R+ G G HLSL+ I
Sbjct: 43 IWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIM 102
Query: 70 ESNSYPNAAWSVNVCYRLFVYDQ 92
W L + DQ
Sbjct: 103 RGEYDALLPWPFKQKVTLMLMDQ 125
>pdb|2QFB|A Chain A, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|B Chain B, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|C Chain C, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|D Chain D, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|E Chain E, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|F Chain F, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|G Chain G, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|H Chain H, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|I Chain I, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFB|J Chain J, Crystal Structure Of The Regulatory Domain Of Human Rig-i
With Bound Zn
pdb|2QFD|A Chain A, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|B Chain B, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|C Chain C, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|D Chain D, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|E Chain E, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|F Chain F, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|G Chain G, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|H Chain H, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|I Chain I, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
pdb|2QFD|J Chain J, Crystal Structure Of The Regulatory Domain Of Human Rig-I
With Bound Hg
Length = 145
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDK 121
W ++V Y+ F I+ + V+D +GV+T + + F+K
Sbjct: 93 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEK 135
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 23/44 (52%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKF 122
W ++V Y+ F I+ + V+D +GV+T + + F+K
Sbjct: 635 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKI 678
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 23/44 (52%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKF 122
W ++V Y+ F I+ + V+D +GV+T + + F+K
Sbjct: 643 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKI 686
>pdb|4GHU|A Chain A, Crystal Structure Of Traf3CARDIF
Length = 198
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 31/83 (37%), Gaps = 4/83 (4%)
Query: 14 IFKIKSFNLLADSTVDG----FESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKID 69
I+KI+ + V G S F +G + + +C R+ G G HLSL+ I
Sbjct: 43 IWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIM 102
Query: 70 ESNSYPNAAWSVNVCYRLFVYDQ 92
W L + DQ
Sbjct: 103 RGEYDALLPWPFKQKVTLMLMDQ 125
>pdb|1KZZ|A Chain A, Downstream Regulator Tank Binds To The Cd40 Recognition
Site On Traf3
pdb|1L0A|A Chain A, Downstream Regulator Tank Binds To The Cd40 Recognition
Site On Traf3
pdb|1ZMS|A Chain A, Lmp1 Protein Binds To Traf3 As A Structural Cd40
pdb|2GKW|A Chain A, Key Contacts Promote Recongnito Of Baff-R By Traf3
Length = 192
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 31/83 (37%), Gaps = 4/83 (4%)
Query: 14 IFKIKSFNLLADSTVDG----FESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKID 69
I+KI+ + V G S F +G + + +C R+ G G HLSL+ I
Sbjct: 43 IWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIM 102
Query: 70 ESNSYPNAAWSVNVCYRLFVYDQ 92
W L + DQ
Sbjct: 103 RGEYDALLPWPFKQKVTLMLMDQ 125
>pdb|3OG8|A Chain A, Crystal Structure Of Human Rig-I Ctd Bound To A 14-Bp
Blunt-Ended Dsrna
pdb|3OG8|B Chain B, Crystal Structure Of Human Rig-I Ctd Bound To A 14-Bp
Blunt-Ended Dsrna
Length = 128
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDK 121
W ++V Y+ F I+ + V+D +GV+T + + F+K
Sbjct: 73 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEK 115
>pdb|3LRN|A Chain A, Crystal Structure Of Human Rig-I Ctd Bound To A 14 Bp Gc
5' Ppp Dsrna
pdb|3LRN|B Chain B, Crystal Structure Of Human Rig-I Ctd Bound To A 14 Bp Gc
5' Ppp Dsrna
pdb|3LRR|A Chain A, Crystal Structure Of Human Rig-I Ctd Bound To A 12 Bp Au
Rich 5' Ppp Dsrna
pdb|3LRR|B Chain B, Crystal Structure Of Human Rig-I Ctd Bound To A 12 Bp Au
Rich 5' Ppp Dsrna
Length = 121
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDK 121
W ++V Y+ F I+ + V+D +GV+T + + F+K
Sbjct: 71 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEK 113
>pdb|3SAH|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
pdb|3SAH|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
Length = 428
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 14/54 (25%)
Query: 55 GKGSSDHL-SLYLKIDESNSYPNAAWSV-------------NVCYRLFVYDQIR 94
G+ S DHL LY +D + Y A W + + Y L++YD++R
Sbjct: 221 GRHSLDHLLKLYCNVDSNKQYQLADWRIRPLPEEMLSAARDDTHYLLYIYDKMR 274
>pdb|1FLK|A Chain A, Molecular Basis For Cd40 Signaling Mediated By Traf3
pdb|1FLK|B Chain B, Molecular Basis For Cd40 Signaling Mediated By Traf3
pdb|1FLL|A Chain A, Molecular Basis For Cd40 Signaling Mediated By Traf3
pdb|1FLL|B Chain B, Molecular Basis For Cd40 Signaling Mediated By Traf3
Length = 228
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 31/83 (37%), Gaps = 4/83 (4%)
Query: 14 IFKIKSFNLLADSTVDG----FESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKID 69
I+KI+ + V G S F +G + + +C R+ G G HLSL+ I
Sbjct: 79 IWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIM 138
Query: 70 ESNSYPNAAWSVNVCYRLFVYDQ 92
W L + DQ
Sbjct: 139 RGEYDALLPWPFKQKVTLMLMDQ 161
>pdb|2RMJ|A Chain A, Solution Structure Of Rig-I C-Terminal Domain
pdb|3NCU|A Chain A, Structural And Functional Insights Into Pattern
Recognition By The Innate Immune Receptor Rig-I
pdb|3NCU|B Chain B, Structural And Functional Insights Into Pattern
Recognition By The Innate Immune Receptor Rig-I
Length = 134
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 79 WSVNVCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKF-LTLAELNQ 130
W ++V Y+ F I+ + V+D +GV+T + + F+K AE+++
Sbjct: 82 WGIHVKYKTFEIPVIKIESFVVEDIATGVQTLYSKWKDFHFEKIPFDPAEMSK 134
>pdb|3SAF|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAF|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
Length = 428
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 14/54 (25%)
Query: 55 GKGSSDHL-SLYLKIDESNSYPNAAWSV-------------NVCYRLFVYDQIR 94
G+ S DHL LY +D + Y A W + + Y L++YD++R
Sbjct: 221 GRHSLDHLLKLYCNVDSNKQYQLADWRIRPLPEEMLSYARDDTHYLLYIYDKMR 274
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
0.319 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,276,042
Number of Sequences: 62578
Number of extensions: 220025
Number of successful extensions: 372
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 352
Number of HSP's gapped (non-prelim): 34
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)