5WWI | pdb_00005wwi

Crystal Structure of HLA-A*2402 in complex with avian influenza A(H7N9) virus-derived peptide H7-25 (data set 1)

• PDB DOI: https://doi.org/10.2210/pdb5WWI/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Influenza A virus (A/chicken/China/028/2014(H7N9))
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-01-01 Released: 2018-01-17 
• Deposition Author(s): Zhao, M., Liu, K., Chai, Y., Qi, J., Liu, J., Gao, G.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.19 Å
• R-Value Free: 
  0.309 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.196 (Depositor) 

Literature

Crystal Structure of HLA-A*2402 in complex with avian influenza A(H7N9) virus-derived peptide H7-25 (data set 1).

Zhao, M., Liu, K., Chai, Y., Qi, J., Liu, J., Gao, G.F.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 44.83 kDa 
• Atom Count: 3,155 
• Modelled Residue Count: 385 
• Deposited Residue Count: 385 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HLA class I histocompatibility antigen, A-24 alpha chain	A	274	Homo sapiens	Mutation(s): 0  Gene Names: HLA-A, HLAA
UniProt & NIH Common Fund Data Resources
Find proteins for P04439 (Homo sapiens) Explore P04439  Go to UniProtKB:  P04439
PHAROS:  P04439 GTEx:  ENSG00000206503

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	B	100	Homo sapiens	Mutation(s): 0  Gene Names: B2M, CDABP0092, HDCMA22P
UniProt & NIH Common Fund Data Resources
Find proteins for P61769 (Homo sapiens) Explore P61769  Go to UniProtKB:  P61769
PHAROS:  P61769 GTEx:  ENSG00000166710

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
LEU-TYR-LYS-LYS-LEU-LYS-ARG-GLU-MET-THR-PHE	C [auth E]	11	Influenza A virus (A/chicken/China/028/2014(H7N9))	Mutation(s): 0
UniProt
Find proteins for A0A0X9JHC1 (Influenza A virus) Explore A0A0X9JHC1  Go to UniProtKB:  A0A0X9JHC1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.19 Å
• R-Value Free:  0.309 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.196 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.444	α = 90
b = 79.004	β = 90
c = 88.048	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
CNS	data reduction
CNS	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-01-17 
Deposition Author(s): Zhao, M., Liu, K., Chai, Y., Qi, J., Liu, J., Gao, G.F.

Revision History  

• Version 1.0: 2018-01-17
  Type: Initial release
  
• Version 1.1: 2019-07-31
  Changes: Data collection, Database references
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Structure summary