› 3kps

X-ray diffraction
2.7Å resolution

Crystal Structure of the LC13 TCR in complex with HLA B*4405 bound to EEYLQAFTY a self peptide from the ABCD3 protein

Released:
DOI: 10.2210/pdb3kps/pdb
PDB entry 3kps coloured by chain, front view.
PDB entry 3kps coloured by chain, side view.
PDB entry 3kps coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
T cell allorecognition via molecular mimicry.
Macdonald WA, Chen Z, Gras S, Archbold JK, Tynan FE, Clements CS, Bharadwaj M, Kjer-Nielsen L, Saunders PM, Wilce MC, Crawford F, Stadinsky B, Jackson D, Brooks AG, Purcell AW, Kappler JW, Burrows SR, Rossjohn J, McCluskey J
Immunity 31 897-908 (2009)
PMID: 20064448

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-134721 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
HLA class I histocompatibility antigen, B alpha chain Chain: A
Molecule details ›
Chain: A
Length: 276 amino acids
Theoretical weight: 32.03 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01889 (Residues: 25-300; Coverage: 82%)
Gene names: HLA-B, HLAB
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 99 amino acids
Theoretical weight: 11.75 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
EEYLQAFTY, self peptide from the ATP binding cassette protein ABCD3 Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 1.16 KDa
T cell receptor alpha chain constant Chain: D
Molecule details ›
Chain: D
Length: 201 amino acids
Theoretical weight: 22.32 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01848 (Residues: 1-89; Coverage: 64%)
Gene names: TCRA, TRAC
Sequence domains: Domain of unknown function (DUF1968)
Structure domains: Immunoglobulins
T cell receptor beta constant 1 Chain: E
Molecule details ›
Chain: E
Length: 241 amino acids
Theoretical weight: 27.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01850 (Residues: 1-129; Coverage: 73%)
Gene name: TRBC1
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX1
Spacegroup: C2
Unit cell:
a: 142.518Å b: 54.237Å c: 121.766Å
α: 90° β: 114.43° γ: 90°
R-values:
R R work R free
0.197 0.193 0.269
Expression system: Escherichia coli

Quick links

Citations

50 review citations

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

17 mentions without citation

TCR Recognition of Peptide-MHC-I: Rule Makers and Breakers.
Szeto et al. (2020)
16 more