5E6I

Crystal structure of TCR PF8 in complex with flu MP(58-66) epitope presented by HLA-A2

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.00 Å
  • R-Value Free: 0.338 
  • R-Value Work: 0.259 
  • R-Value Observed: 0.263 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history. 


Literature

Crystal structure of TCR PF8 in complex with flu MP(58-66) epitope presented by HLA-A2

Gao, M.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
TCR alpha chain,Human nkt tcr alpha chainA [auth G],
F [auth A],
K [auth F],
P		208Homo sapiensMutation(s): 0 
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UniProt GroupK7N5M3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
T-cell receptor beta-2 chain C regionB [auth H],
G [auth B],
L,
Q		243Homo sapiensMutation(s): 0 
Gene Names: TRBC2
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
HLA class I histocompatibility antigen, A-2 alpha chainC [auth I],
H [auth C],
M,
R		276Homo sapiensMutation(s): 0 
Gene Names: HLA-A, HLAA
UniProt & NIH Common Fund Data Resources
Find proteins for P04439 (Homo sapiens)
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GTEx:  ENSG00000206503 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Beta-2-microglobulinD [auth J],
I [auth D],
N,
S [auth U]		100Homo sapiensMutation(s): 0 
Gene Names: B2M, CDABP0092, HDCMA22P
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Find proteins for P61769 (Homo sapiens)
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GTEx:  ENSG00000166710 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Matrix protein 1E [auth K],
J [auth E],
O,
T		9Influenza A virus (A/Boston/2747243M/2009(H1N1))Mutation(s): 0 
UniProt
Find proteins for P03485 (Influenza A virus (strain A/Puerto Rico/8/1934 H1N1))
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UniProt GroupP03485
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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.00 Å
  • R-Value Free: 0.338 
  • R-Value Work: 0.259 
  • R-Value Observed: 0.263 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.853α = 83.66
b = 123.614β = 74.87
c = 139.036γ = 73.17
Software Package:
Software NamePurpose
PHENIXrefinement
d*TREKdata scaling
PHASERphasing
Cootmodel building
PDB_EXTRACTdata extraction
CrystalCleardata reduction

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI036900

Revision History  (Full details and data files)

  • Version 1.0: 2016-10-19
    Type: Initial release
  • Version 1.1: 2017-09-06
    Changes: Author supporting evidence, Derived calculations
  • Version 1.2: 2017-11-01
    Changes: Author supporting evidence
  • Version 1.3: 2019-12-11
    Changes: Author supporting evidence
  • Version 1.4: 2020-01-29
    Changes: Derived calculations
  • Version 1.5: 2023-09-27
    Changes: Data collection, Database references, Refinement description