› 8f7m

X-ray diffraction
1.88Å resolution

Crystal Structure of HLA-B*57:01-TW10-T242N complex

Released:
DOI: 10.2210/pdb8f7m/pdb
PDB entry 8f7m coloured by chain, front view.
PDB entry 8f7m coloured by chain, side view.
PDB entry 8f7m coloured by chain, top view.
Source organisms:
Primary publication:
Public T cell clonotypes are selected in HLA-B∗57:01+/HIV+ patients independently of the viral load.
Chatzileontiadou DSM, Lobos CA, Robson H, Almedia CA, Szeto C, Castley A, D'Orsogna LJ, Gras S
Cell Rep 43 114555 (2024)
PMID: 39083376

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid
Endohydrolysis of RNA in RNA/DNA hybrids. Three different cleavage modes: 1. sequence-specific internal cleavage of RNA. Human immunodeficiency virus type 1 and Moloney murine leukemia virus enzymes prefer to cleave the RNA strand one nucleotide away from the RNA-DNA junction. 2. RNA 5'-end directed cleavage 13-19 nucleotides from the RNA end. 3. DNA 3'-end directed cleavage 15-20 nucleotides away from the primer terminus.
Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro.
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-138012 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 278 amino acids
Theoretical weight: 31.91 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: U6BR87 (Residues: 25-302; Coverage: 89%)
Gene name: HLA-B
Sequence 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
Capsid protein p24 Chain: C
Molecule details ›
Chain: C
Length: 10 amino acids
Theoretical weight: 1.18 KDa
Source organism: HIV-1 06TG.HT008
Expression system: Not provided
UniProt:
  • Canonical: P04585 (Residues: 240-249; Coverage: 1%)
Gene name: gag-pol

Ligands and Environments

2 bound ligands:
Ligand PEG 1 x PEG
Ligand ACT 2 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P212121
Unit cell:
a: 50.942Å b: 82.174Å c: 110.833Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.172 0.22
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 citations in other articles

Polymorphic residues in HLA-B that mediate HIV control distinctly modulate peptide interactions with both TCR and KIR molecules.
Tano-Menka et al. (2024)