› 3qib

X-ray diffraction
2.7Å resolution

Crystal structure of the 2B4 TCR in complex with MCC/I-Ek

Released:
DOI: 10.2210/pdb3qib/pdb
PDB entry 3qib coloured by chain, front view.
PDB entry 3qib coloured by chain, side view.
PDB entry 3qib coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of specificity and cross-reactivity in T cell receptors specific for cytochrome c-I-E(k).
Newell EW, Ely LK, Kruse AC, Reay PA, Rodriguez SN, Lin AE, Kuhns MS, Garcia KC, Davis MM
J Immunol 186 5823-32 (2011)
PMID: 21490152

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-208194 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
H-2 class II histocompatibility antigen, E-K alpha chain Chain: A
Molecule details ›
Chain: A
Length: 193 amino acids
Theoretical weight: 22.49 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P04224 (Residues: 26-216; Coverage: 83%)
Sequence domains:
Structure domains:
H-2 class II histocompatibility antigen, E-B beta chain Chain: B
Molecule details ›
Chain: B
Length: 202 amino acids
Theoretical weight: 23.34 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P04230 (Residues: 30-225; Coverage: 82%)
Gene name: H2-Eb1
Sequence domains:
Structure domains:
T cell receptor alpha chain constant Chain: C
Molecule details ›
Chain: C
Length: 207 amino acids
Theoretical weight: 22.81 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01848 (Residues: 1-93; Coverage: 66%)
Gene names: TCRA, TRAC
Sequence domains: Domain of unknown function (DUF1968)
Structure domains: Immunoglobulins
2B4 beta chain Chain: D
Molecule details ›
Chain: D
Length: 270 amino acids
Theoretical weight: 30.29 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Cytochrome c Chain: P
Molecule details ›
Chain: P
Length: 13 amino acids
Theoretical weight: 1.39 KDa
Source organism: Manduca sexta
Expression system: Escherichia coli
UniProt:
  • Canonical: P00039 (Residues: 97-108; Coverage: 11%)

Ligands and Environments

4 bound ligands:
Ligand NAG 2 x NAG
Ligand FUC 2 x FUC
Ligand PEG 7 x PEG
Ligand BMA 1 x BMA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.1
Spacegroup: F222
Unit cell:
a: 146.749Å b: 167.178Å c: 259.489Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.221 0.246
Expression systems:
  • Trichoplusia ni
  • Escherichia coli

Quick links

Citations

8 review citations

γδ T cells: first line of defense and beyond.
Chien et al. (2014)
7 more

16 mentions without citation

Conformational variation in structures of classical and non-classical MHCII proteins and functional implications.
Painter et al. (2012)
15 more