› 9cyl

X-ray diffraction
4.66Å resolution

Structure of LAG3 loop1 deletion bound to the MHC class II molecule I-A(b)

Released:
DOI: 10.2210/pdb9cyl/pdb
PDB entry 9cyl coloured by chain, front view.
PDB entry 9cyl coloured by chain, side view.
PDB entry 9cyl coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for mouse LAG3 interactions with the MHC class II molecule I-Ab.
Ming Q, Antfolk D, Price DA, Manturova A, Medina E, Singh S, Mason C, Tran TH, Smalley KSM, Leung DW, Luca VC
Nat Commun 15 7513 (2024)
PMID: 39209860

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-250619 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
H-2 class II histocompatibility antigen, A-B alpha chain Chain: A
Molecule details ›
Chain: A
Length: 195 amino acids
Theoretical weight: 22.03 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P14434 (Residues: 24-218; Coverage: 84%)
Gene name: H2-Aa
Sequence domains:
H-2 class II histocompatibility antigen, A beta chain Chain: B
Molecule details ›
Chain: B
Length: 192 amino acids
Theoretical weight: 22.64 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P14483 (Residues: 27-218; Coverage: 80%)
Gene names: H2-Ab1, H2-iabeta
Sequence domains:
Class-II-associated invariant chain peptide Chain: P
Molecule details ›
Chain: P
Length: 15 amino acids
Theoretical weight: 1.68 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P04233 (Residues: 103-117; Coverage: 5%)
Gene names: CD74, DHLAG
Secreted lymphocyte activation gene 3 protein Chain: L
Molecule details ›
Chain: L
Length: 210 amino acids
Theoretical weight: 23.32 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q61790 (Residues: 23-254; Coverage: 42%)
Gene name: Lag3

Ligands and Environments

1 bound ligand:
Ligand NAG 4 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS-II BEAMLINE 19-ID
Spacegroup: P6522
Unit cell:
a: 184.994Å b: 184.994Å c: 122.672Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.271 0.268 0.326
Expression system: Trichoplusia ni

Quick links