SMTL ID : 6o5e.1 (1 other biounit)

Crystal structure of the Vitronectin hemopexin-like domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 5 residues within 4Å: Chain A: D.10, D.55, D.103, D.157, A.158 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.103 NA.3: 8 residues within 4Å: Chain A: F.12, A.57, F.58, A.105, L.106, A.159, M.160 Ligands: CL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.12, A:F.12, A:A.57, A:A.105

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 9 residues within 4Å: Chain A: A.11, F.12, A.56, A.57, A.104, A.105, A.158, A.159 Ligands: NA.3 Ligand excluded by PLIP

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 8 residues within 4Å: Chain A: R.60, Y.68, Y.75, R.77, Y.87, R.89, F.95, F.132 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.60, A:Y.68, A:Y.75, A:Y.87, A:R.89 Water bridges: A:R.77, A:R.77 Salt bridges: A:R.77

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.5: 7 residues within 4Å: Chain A: L.3, C.4, P.38, L.200, G.201, C.202, P.203 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shin, K. et al., Structure of human Vitronectin C-terminal domain and interaction withYersinia pestisouter membrane protein Ail. Sci Adv (2019)

Release Date

2019-09-18

Peptides

Vitronectin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Vitronectin

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