SMTL ID : 7azn.1

Structure of mouse AsterC (GramD1c) with a new cholesterol-derived compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

monomer

Ligands

1 x YK8: 20alpha-hydroxy-20-(5-methylhexyl)cholesterol(Non-covalent)

YK8.1: 20 residues within 4Å: Chain A: I.36, Y.58, I.60, L.62, T.67, E.75, V.95, V.100, P.101, F.106, T.108, N.110, I.144, N.147, S.148, S.151, L.152, Y.155 Ligands: EOH.6, GOL.8 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.36, A:I.60, A:L.62, A:T.67, A:V.95, A:V.100, A:P.101, A:F.106, A:T.108, A:I.144, A:N.147, A:L.152, A:Y.155, A:Y.155 Hydrogen bonds: A:E.75, A:N.147 Water bridges: A:Y.112

6 x EOH: ETHANOL(Non-functional Binders)

EOH.2: 5 residues within 4Å: Chain A: T.57, Y.58, T.59, A.72, A.73 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.72 Hydrogen bonds: A:T.59 EOH.3: 5 residues within 4Å: Chain A: T.22, S.23, S.41, T.42, R.54 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.23, A:S.41, A:T.42, A:R.54 EOH.4: 4 residues within 4Å: Chain A: D.99, V.100, P.101, H.103 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.101 Hydrogen bonds: A:H.103 EOH.5: 2 residues within 4Å: Chain A: R.34, S.151 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.34, A:R.34 EOH.6: 6 residues within 4Å: Chain A: E.75, Q.77, Y.112, Y.155 Ligands: YK8.1, GOL.8 No protein-ligand interaction detected (PLIP) EOH.7: 5 residues within 4Å: Chain A: Y.4, I.5, N.6, R.7, E.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.6, A:N.6

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 9 residues within 4Å: Chain A: M.27, A.31, V.39, M.56, Y.58, E.75, Y.155 Ligands: YK8.1, EOH.6 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.75, A:Y.155 Water bridges: A:L.20, A:R.54, A:Q.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiao, X. et al., Selective Aster inhibitors distinguish vesicular and nonvesicular sterol transport mechanisms. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2021-01-13

Peptides

Protein Aster-C: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein Aster-C