› 6iwh

X-ray diffraction
1.95Å resolution

Crystal structure of rhesus macaque MHC class I molecule Mamu-B*05104 complexed with C14-GGGI lipopeptide

Released:
DOI: 10.2210/pdb6iwh/pdb
PDB entry 6iwh coloured by chain, front view.
PDB entry 6iwh coloured by chain, side view.
PDB entry 6iwh coloured by chain, top view.
Source organisms:
Primary publication:
Identification and Structure of an MHC Class I-Encoded Protein with the Potential to Present N-Myristoylated 4-mer Peptides to T Cells.
Yamamoto Y, Morita D, Shima Y, Midorikawa A, Mizutani T, Suzuki J, Mori N, Shiina T, Inoko H, Tanaka Y, Mikami B, Sugita M
J Immunol 202 3349-3358 (2019)
PMID: 31043477

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-109778 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 276 amino acids
Theoretical weight: 31.92 KDa
Source organism: Macaca mulatta
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B2ZHY7 (Residues: 22-297; Coverage: 82%)
Gene names: B, Mamu-B
Sequence domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 100 amino acids
Theoretical weight: 11.73 KDa
Source organism: Macaca mulatta
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q6V7J5 (Residues: 20-119; Coverage: 100%)
Gene name: B2M
Sequence domains: Immunoglobulin C1-set domain
C14-GGGI lipopeptide Chain: C
Molecule details ›
Chain: C
Length: 5 amino acids
Theoretical weight: 513 Da
Source organism: Simian immunodeficiency virus
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand NA 5 x NA
Ligand EDO 13 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B1
Spacegroup: P212121
Unit cell:
a: 55.103Å b: 80.791Å c: 106.421Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.175 0.175 0.217
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 review citations

N-Myristoyltransferase as a Glycine and Lysine Myristoyltransferase in Cancer, Immunity, and Infections.
Kosciuk et al. (2020)
1 more