› 3pqy

X-ray diffraction
3.19Å resolution

Crystal Structure of 6218 TCR in complex with the H2Db-PA224

Released:
DOI: 10.2210/pdb3pqy/pdb
PDB entry 3pqy coloured by chain, front view.
PDB entry 3pqy coloured by chain, side view.
PDB entry 3pqy coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for enabling T-cell receptor diversity within biased virus-specific CD8+ T-cell responses.
Day EB, Guillonneau C, Gras S, La Gruta NL, Vignali DA, Doherty PC, Purcell AW, Rossjohn J, Turner SJ
Proc Natl Acad Sci U S A 108 9536-41 (2011)
PMID: 21606376

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-100455 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
H-2 class I histocompatibility antigen, D-B alpha chain Chains: A, F, K, P
Molecule details ›
Chains: A, F, K, P
Length: 275 amino acids
Theoretical weight: 32.03 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01899 (Residues: 26-300; Coverage: 81%)
Gene name: H2-D1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, G, L, Q
Molecule details ›
Chains: B, G, L, Q
Length: 99 amino acids
Theoretical weight: 11.7 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Polymerase acidic protein Chains: C, H, M, R
Molecule details ›
Chains: C, H, M, R
Length: 10 amino acids
Theoretical weight: 1.19 KDa
Source organism: synthetic construct
Expression system: Not provided
UniProt:
  • Canonical: P13175 (Residues: 224-233; Coverage: 1%)
Gene name: PA
Ig-like domain-containing protein Chains: D, I, N, S
Molecule details ›
Chains: D, I, N, S
Length: 195 amino acids
Theoretical weight: 21.61 KDa
Source organisms: Expression system: Escherichia coli BL21
UniProt:
  • Canonical: A0A075B6C4 (Residues: 20-107; Coverage: 98%)
  • Canonical: K7N5N2 (Residues: 115-201; Coverage: 42%)
Gene name: Trav21-dv12
Sequence domains:
Structure domains: Immunoglobulins
Ig-like domain-containing protein Chains: E, J, O, T
Molecule details ›
Chains: E, J, O, T
Length: 240 amino acids
Theoretical weight: 27.58 KDa
Source organisms: Expression system: Escherichia coli BL21
UniProt:
  • Canonical: A0A0G2LB96 (Residues: 20-113; Coverage: 99%)
  • Canonical: K7N5M4 (Residues: 107-249; Coverage: 55%)
Gene names: B2M, HDCMA22P, Trbv28, Trbv29
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-B
Spacegroup: P212121
Unit cell:
a: 105.893Å b: 199.063Å c: 202.465Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.249 0.246 0.316
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided
  • Escherichia coli BL21

Quick links

Citations

4 review citations

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

9 mentions without citation

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