› 3mj9

X-ray diffraction
2.95Å resolution

Crystal structure of JAML in complex with the stimulatory antibody HL4E10

Released:
DOI: 10.2210/pdb3mj9/pdb
PDB entry 3mj9 coloured by chain, front view.
PDB entry 3mj9 coloured by chain, side view.
PDB entry 3mj9 coloured by chain, top view.
Source organisms:
Primary publication:
Molecular insights into γδ T cell costimulation by an anti-JAML antibody.
Verdino P, Witherden DA, Ferguson MS, Corper AL, Schiefner A, Havran WL, Wilson IA
Structure 19 80-9 (2011)
PMID: 21220118

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-566501 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Junctional adhesion molecule-like Chain: A
Molecule details ›
Chain: A
Length: 268 amino acids
Theoretical weight: 30.65 KDa
Source organism: Mus musculus
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: Q80UL9 (Residues: 21-280; Coverage: 72%)
Gene names: Amica1, Gm638, Jaml
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins
STIMULATORY HAMSTER ANTIBODY HL4E10 FAB LIGHT CHAIN Chain: L
Molecule details ›
Chain: L
Length: 213 amino acids
Theoretical weight: 22.78 KDa
Source organism: Nothocricetulus migratorius
Structure domains: Immunoglobulins
STIMULATORY HAMSTER ANTIBODY HL4E10 FAB HEAVY CHAIN Chain: H
Molecule details ›
Chain: H
Length: 223 amino acids
Theoretical weight: 23.65 KDa
Source organism: Nothocricetulus migratorius
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN, FUC
Carbohydrate polymer
1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P43212
Unit cell:
a: 125.02Å b: 125.02Å c: 107.839Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.222 0.287
Expression system: Drosophila melanogaster

Quick links

Citations

4 review citations

Intestinal Barrier Interactions with Specialized CD8 T Cells.
Konjar et al. (2017)
3 more

4 mentions without citation

An expanded benchmark for antibody-antigen docking and affinity prediction reveals insights into antibody recognition determinants.
Guest et al. (2021)
3 more