› 2iam

X-ray diffraction
2.8Å resolution

Structural basis for recognition of mutant self by a tumor-specific, MHC class II-restricted TCR

Released:
DOI: 10.2210/pdb2iam/pdb
PDB entry 2iam coloured by chain, front view.
PDB entry 2iam coloured by chain, side view.
PDB entry 2iam coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for the recognition of mutant self by a tumor-specific, MHC class II-restricted T cell receptor.
Deng L, Langley RJ, Brown PH, Xu G, Teng L, Wang Q, Gonzales MI, Callender GG, Nishimura MI, Topalian SL, Mariuzza RA
Nat Immunol 8 398-408 (2007)
PMID: 17334368

Function and Biology Details

Reactions catalysed: 
Glycerone phosphate = methylglyoxal + phosphate
D-glyceraldehyde 3-phosphate = glycerone phosphate
Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-525378 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
HLA class II histocompatibility antigen, DR alpha chain Chain: A
Molecule details ›
Chain: A
Length: 182 amino acids
Theoretical weight: 21.16 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01903 (Residues: 26-207; Coverage: 80%)
Gene names: HLA-DRA, HLA-DRA1
Sequence domains:
Structure domains:
HLA class II histocompatibility antigen, DRB1 beta chain Chain: B
Molecule details ›
Chain: B
Length: 190 amino acids
Theoretical weight: 22.08 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01911 (Residues: 30-219; Coverage: 80%)
Gene name: HLA-DRB1
Sequence domains:
Structure domains:
Triosephosphate isomerase Chain: P
Molecule details ›
Chain: P
Length: 15 amino acids
Theoretical weight: 1.48 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P60174 (Residues: 23-37; Coverage: 6%)
Gene names: TPI, TPI1
T cell receptor alpha chain constant Chain: C
Molecule details ›
Chain: C
Length: 202 amino acids
Theoretical weight: 22.4 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01848 (Residues: 1-93; Coverage: 66%)
Gene names: TCRA, TRAC
Sequence domains: Domain of unknown function (DUF1968)
Structure domains: Immunoglobulins
T cell receptor beta constant 1 Chain: D
Molecule details ›
Chain: D
Length: 240 amino acids
Theoretical weight: 27.09 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
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: RIGAKU
Spacegroup: C222
Unit cell:
a: 86.391Å b: 270.542Å c: 97.396Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.207 0.279
Expression system: Escherichia coli BL21

Quick links

Citations

21 review citations

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

30 mentions without citation

Emerging Concepts in TCR Specificity: Rationalizing and (Maybe) Predicting Outcomes.
Singh et al. (2017)
29 more