› 3b9k

X-ray diffraction
2.7Å resolution

Crystal structure of CD8alpha-beta in complex with YTS 156.7 FAB

Released:
DOI: 10.2210/pdb3b9k/pdb
PDB entry 3b9k coloured by chain, front view.
PDB entry 3b9k coloured by chain, side view.
PDB entry 3b9k coloured by chain, top view.
Source organisms:
Primary publication:
The crystal structure of CD8 in complex with YTS156.7.7 Fab and interaction with other CD8 antibodies define the binding mode of CD8 alphabeta to MHC class I.
Shore DA, Issafras H, Landais E, Teyton L, Wilson IA
J Mol Biol 384 1190-202 (2008)
PMID: 18929574

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208517 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Fab Light Chain Chains: C, L
Molecule details ›
Chains: C, L
Length: 213 amino acids
Theoretical weight: 23.46 KDa
Source organism: Rattus rattus
Structure domains: Immunoglobulins
Fab Heavy chain Chains: D, H
Molecule details ›
Chains: D, H
Length: 214 amino acids
Theoretical weight: 22.86 KDa
Source organism: Rattus rattus
Structure domains: Immunoglobulins
T-cell surface glycoprotein CD8 alpha chain Chains: A, E
Molecule details ›
Chains: A, E
Length: 131 amino acids
Theoretical weight: 14.78 KDa
Source organism: Mus musculus
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P01731 (Residues: 28-151; Coverage: 56%)
Gene names: Cd8a, Lyt-2, Lyt2
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins
T-cell surface glycoprotein CD8 beta chain Chains: B, F
Molecule details ›
Chains: B, F
Length: 125 amino acids
Theoretical weight: 14.08 KDa
Source organism: Mus musculus
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P10300 (Residues: 22-138; Coverage: 61%)
Gene names: Cd8b, Cd8b1, Ly-3, Lyt-3, Lyt3
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P212121
Unit cell:
a: 91.779Å b: 92.747Å c: 190.31Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.238 0.235 0.284
Expression system: Drosophila melanogaster

Quick links

Citations

2 review citations

A synergistic approach to protein crystallization: combination of a fixed-arm carrier with surface entropy reduction.
Moon et al. (2010)
1 more

3 mentions without citation

Canonical structures of short CDR-L3 in antibodies.
Teplyakov et al. (2014)
2 more