› 8vr9

Electron Microscopy
3.06Å resolution

Structure of a synthetic antibody in complex with a class I MHC presenting a hapten-peptide conjugate

Released:
DOI: 10.2210/pdb8vr9/pdb
PDB entry 8vr9 coloured by chain, front view.
PDB entry 8vr9 coloured by chain, side view.
PDB entry 8vr9 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular basis for antibody recognition of multiple drug-peptide/MHC complexes.
Maso L, Rajak E, Bang I, Koide A, Hattori T, Neel BG, Koide S
Proc Natl Acad Sci U S A 121 e2319029121 (2024)
PMID: 38781214
Related structures: EMD-43478

Function and Biology Details

Reaction catalysed: 
GTP + H(2)O = GDP + phosphate
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-275979 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
HLA class I histocompatibility antigen, A alpha chain Chain: A
Molecule details ›
Chain: A
Length: 278 amino acids
Theoretical weight: 32.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04439 (Residues: 25-299; Coverage: 81%)
Gene names: HLA-A, HLAA
Sequence domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 101 amino acids
Theoretical weight: 11.89 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
GTPase KRas, N-terminally processed Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 790 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P01116 (Residues: 8-16; Coverage: 5%)
Gene names: KRAS, KRAS2, RASK2
R023 Fab light chain Chain: D
Molecule details ›
Chain: D
Length: 216 amino acids
Theoretical weight: 23.52 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
R023 Fab heavy chain Chain: E
Molecule details ›
Chain: E
Length: 228 amino acids
Theoretical weight: 24.03 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli

Ligands and Environments

1 bound ligand:
Ligand MOV 1 x MOV
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.06Å
Relevant EMDB volumes: EMD-43478
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided
  • Escherichia coli

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