› 3vxu

X-ray diffraction
2.7Å resolution

The complex between T36-5 TCR and HLA-A24 bound to HIV-1 Nef134-10(2F) peptide

Released:
DOI: 10.2210/pdb3vxu/pdb
PDB entry 3vxu coloured by chain, front view.
PDB entry 3vxu coloured by chain, side view.
PDB entry 3vxu coloured by chain, top view.
Source organisms:
Primary publication:
Structure of TCR and antigen complexes at an immunodominant CTL epitope in HIV-1 infection.
Shimizu A, Kawana-Tachikawa A, Yamagata A, Han C, Zhu D, Sato Y, Nakamura H, Koibuchi T, Carlson J, Martin E, Brumme CJ, Shi Y, Gao GF, Brumme ZL, Fukai S, Iwamoto A
Sci Rep 3 3097 (2013)
PMID: 24192765

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-235027 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
HLA class I histocompatibility antigen, A alpha chain Chains: A, F
Molecule details ›
Chains: A, F
Length: 275 amino acids
Theoretical weight: 31.68 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04439 (Residues: 25-298; Coverage: 80%)
Gene names: HLA-A, HLAA
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, G
Molecule details ›
Chains: B, G
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
C-terminal core protein Chains: C, H
Molecule details ›
Chains: C, H
Length: 10 amino acids
Theoretical weight: 1.27 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: Q9YYU3 (Residues: 143-152; Coverage: 5%)
Gene name: nef
T36-5 TCR alpha chain Chains: D, I
Molecule details ›
Chains: D, I
Length: 205 amino acids
Theoretical weight: 22.76 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins
T36-5 TCR beta chain Chains: E, J
Molecule details ›
Chains: E, J
Length: 242 amino acids
Theoretical weight: 27.58 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P32
Unit cell:
a: 73.162Å b: 73.162Å c: 415.663Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.272 0.272 0.323
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

T cell antigen receptor recognition of antigen-presenting molecules.
Rossjohn et al. (2015)
2 more

7 mentions without citation

Emerging Concepts in TCR Specificity: Rationalizing and (Maybe) Predicting Outcomes.
Singh et al. (2017)
6 more