SMTL ID : 8dgg.1

Structure of glycosylated LAG-3 homodimer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.78 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-NAG.1: 8 residues within 4Å: Chain A: L.160, N.162, S.164, F.197 Chain B: R.170, A.194, E.195, R.218 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.218 NAG-NAG-NAG.3: 6 residues within 4Å: Chain A: R.170, F.192, E.195 Chain B: N.162, S.164, F.197 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 3 residues within 4Å: Chain A: W.109, N.222 Ligands: FUC.4 No protein-ligand interaction detected (PLIP)

1 x FUC: alpha-L-fucopyranose(Non-covalent)

FUC.4: 3 residues within 4Å: Chain A: E.97, R.103 Ligands: NAG-NAG.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.103

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 2 residues within 4Å: Chain A: H.255, N.287 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.287 NAG.6: 3 residues within 4Å: Chain A: Q.312, Q.313, N.315 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.312 NAG.7: 3 residues within 4Å: Chain B: G.220, F.221, N.222 No protein-ligand interaction detected (PLIP) NAG.8: 2 residues within 4Å: Chain B: Q.313, N.315 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silberstein, J.L. et al., Structural insights reveal interplay between LAG-3 homodimerization, ligand binding, and function. Proc.Natl.Acad.Sci.USA (2024)

Release Date

2022-08-17

Peptides

Lymphocyte activation gene 3 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lymphocyte activation gene 3 protein