SMTL ID : 8os2.1

Structure of the human LYVE-1 (lymphatic vessel endothelial receptor-1) hyaluronan binding domain in an unliganded state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: R.37, L.64, L.66, N.130, S.132, D.133 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.66 Hydrogen bonds: A:R.37, A:N.130 Water bridges: A:R.37, A:N.130, A:S.132, A:D.133, A:T.134, A:T.134, A:T.134 NAG.2: 4 residues within 4Å: Chain A: N.53, E.56, V.120, S.121 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.120 Hydrogen bonds: A:N.53 Water bridges: A:N.53, A:T.55, A:E.56

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: K.58, R.62 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.58, A:R.62, A:R.62 GOL.4: 2 residues within 4Å: Chain A: T.136, E.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.136, A:E.142 Water bridges: A:T.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bano, F. et al., A novel sliding interaction with hyaluronan underlies the mode of action of LYVE-1, the receptor for leucocyte entry and trafficking in the lymphatics. To be published

Release Date

2024-07-31

Peptides

Lymphatic vessel endothelial hyaluronic acid receptor 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lymphatic vessel endothelial hyaluronic acid receptor 1