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= 046165
(287 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3QJF|B Chain B, Crystal Structure Of The 2b4 Tcr
pdb|3QJF|D Chain D, Crystal Structure Of The 2b4 Tcr
Length = 244
Score = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 154 IGYSYFTRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIF 213
+ +S T++F G+ +L L D +VF VF+ SE E+ T L V L F
Sbjct: 96 LNWSQDTQYFGPGTRLLVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGF 150
Query: 214 FP 215
+P
Sbjct: 151 YP 152
>pdb|3QIB|D Chain D, Crystal Structure Of The 2b4 Tcr In Complex With MccI-Ek
Length = 270
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 154 IGYSYFTRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIF 213
+ +S T++F G+ +L L D +VF VF+ SE E+ T L V L F
Sbjct: 122 LNWSQDTQYFGPGTRLLVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGF 176
Query: 214 FP 215
+P
Sbjct: 177 YP 178
>pdb|3HE6|D Chain D, Crystal Structure Of Mouse Cd1d-Alpha-Galactosylceramide
With Mouse Valpha14-Vbeta8.2 Nkt Tcr
pdb|3ARB|D Chain D, Ternary Crystal Structure Of The Nkt
Tcr-Cd1d-Alpha-Galactosylceramide Analogue-Och
pdb|3ARD|D Chain D, Ternary Crystal Structure Of The Mouse Nkt
Tcr-Cd1d-3'deoxy-Alpha- Galactosylceramide
pdb|3ARE|D Chain D, Ternary Crystal Structure Of The Mouse Nkt
Tcr-Cd1d-4'deoxy-Alpha- Galactosylceramide
pdb|3ARF|D Chain D, Ternary Crystal Structure Of The Mouse Nkt Tcr-Cd1d-C20:2
pdb|3ARG|D Chain D, Ternary Crystal Structure Of The Mouse Nkt Tcr-Cd1d-Alpha-
Glucosylceramide(C20:2)
pdb|3TN0|D Chain D, Structure Of Mouse Va14vb8.2nkt Tcr-Mouse
Cd1d-A-C-Galactosylceramide Complex
Length = 244
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 155 GYSYFTRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIFF 214
G +Y +FF G+ + L D +VF VF+ SE E+ T L V L F+
Sbjct: 97 GGNYAEQFFGPGTRLTVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGFY 151
Query: 215 P 215
P
Sbjct: 152 P 152
>pdb|3DX9|B Chain B, Crystal Structure Of The Dm1 Tcr At 2.75a
pdb|3DX9|D Chain D, Crystal Structure Of The Dm1 Tcr At 2.75a
pdb|3DXA|E Chain E, Crystal Structure Of The Dm1 Tcr In Complex With Hla-B4405
And Decamer Ebv Antigen
pdb|3DXA|J Chain J, Crystal Structure Of The Dm1 Tcr In Complex With Hla-B4405
And Decamer Ebv Antigen
pdb|3DXA|O Chain O, Crystal Structure Of The Dm1 Tcr In Complex With Hla-B4405
And Decamer Ebv Antigen
Length = 244
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 5/59 (8%)
Query: 157 SYFTRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIFFP 215
SY +FF G+ + L D +VF VF+ SE E+ T L V L F+P
Sbjct: 99 SYNEQFFGPGTRLTVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGFYP 152
>pdb|3TYF|B Chain B, Crystal Structure Of A Cd1d-Lysophosphatidylcholine
Reactive Inkt Tcr
pdb|3TYF|D Chain D, Crystal Structure Of A Cd1d-Lysophosphatidylcholine
Reactive Inkt Tcr
pdb|3TZV|B Chain B, Crystal Structure Of An Inkt Tcr In Complex With Cd1d-
Lysophosphatidylcholine
pdb|3TZV|H Chain H, Crystal Structure Of An Inkt Tcr In Complex With Cd1d-
Lysophosphatidylcholine
Length = 259
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 157 SYFTRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIFFPF 216
S T++F G+ +L L D +VF VF+ SE E+ T L V L F+P
Sbjct: 104 SVGTQYFGPGTRLLVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGFYPD 158
Query: 217 WV 218
V
Sbjct: 159 HV 160
>pdb|3SDX|F Chain F, Crystal Structure Of Human Autoreactive-Valpha24 Nkt Tcr
In Complex With Cd1d-Beta-Galactosylceramide
pdb|3SDX|H Chain H, Crystal Structure Of Human Autoreactive-Valpha24 Nkt Tcr
In Complex With Cd1d-Beta-Galactosylceramide
Length = 247
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 160 TRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIFFPFWV 218
T++F G+ +L L D +VF VF+ SE E+ T L V L F+P V
Sbjct: 105 TQYFGPGTRLLVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGFYPDHV 158
>pdb|4E41|E Chain E, Structural Basis For The Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted T Cell Receptor
G4
pdb|4E41|J Chain J, Structural Basis For The Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted T Cell Receptor
G4
pdb|4E42|B Chain B, Structural Basis For The Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted T Cell Receptor
G4
pdb|4E42|D Chain D, Structural Basis For The Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted T Cell Receptor
G4
Length = 239
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 160 TRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIFFP 215
T++F G+ +L L D +VF VF+ SE E+ T L V L F+P
Sbjct: 97 TQYFGPGTRLLVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGFYP 147
>pdb|3HE7|D Chain D, Crystal Structure Of Mouse Cd1d-Alpha-Galactosylceramide
With Mouse Valpha14-Vbeta7 Nkt Tcr
Length = 242
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 160 TRFFQIGSIILALHDASDVFMEAAKVFKYSENELGATVIFGLFAISWVILRLIFFPFWV 218
T++F G+ +L L D +VF VF+ SE E+ T L V L F+P V
Sbjct: 100 TQYFGPGTRLLVLEDLKNVFPPEVAVFEPSEAEISHTQKATL-----VCLATGFYPDHV 153
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
0.331 0.142 0.471
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,863,859
Number of Sequences: 62578
Number of extensions: 279098
Number of successful extensions: 568
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 560
Number of HSP's gapped (non-prelim): 8
length of query: 287
length of database: 14,973,337
effective HSP length: 98
effective length of query: 189
effective length of database: 8,840,693
effective search space: 1670890977
effective search space used: 1670890977
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 51 (24.3 bits)