5HGD

HLA*A2402 complexed with HIV nef138 Y2F mutant 10mer epitope

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history. 

Literature

Effects of a Single Escape Mutation on T Cell and HIV-1 Co-adaptation

Sun, X., Shi, Y., Akahoshi, T., Fujiwara, M., Gatanaga, H., Schonbach, C., Kuse, N., Appay, V., Gao, G.F., Oka, S., Takiguchi, M.

(2016) Cell Rep 15: 1-13


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HLA class I histocompatibility antigen, A-24 alpha chain
A, D
275Homo sapiensMutation(s): 0 
Gene Names: HLA-A (HLAA)
Find proteins for P05534 (Homo sapiens)
Go to Gene View: HLA-A
Go to UniProtKB:  P05534
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Beta-2-microglobulin
B, E
100Homo sapiensMutation(s): 0 
Gene Names: B2M
Find proteins for P61769 (Homo sapiens)
Go to Gene View: B2M
Go to UniProtKB:  P61769
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Protein Nef
C, F
10Human immunodeficiency virus type 1 group M subtype BMutation(s): 1 
Gene Names: nef
Find proteins for P04601 (Human immunodeficiency virus type 1 group M subtype B)
Go to UniProtKB:  P04601
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.184 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 50.655α = 67.97
b = 65.741β = 89.80
c = 87.519γ = 89.89
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHENIXphasing
PHENIXrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-06-08
    Type: Initial release