SMTL ID : 7svp.4 (3 other biounits)

Structure of compound 34 bound to human Phospholipase D2 catalytic domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

1 x CI0: 1-(1-{(2S)-1-[(3R,5R)-3,5-dimethylpiperazin-1-yl]-1-oxopropan-2-yl}piperidin-4-yl)-1,3-dihydro-2H-benzimidazol-2-one(Non-covalent)

CI0.1: 21 residues within 4Å: Chain A: W.71, W.72, A.115, L.116, G.117, I.118, A.147, H.149, R.171, L.221, D.225, W.226, W.247, Q.349, F.350, G.393, F.394, Y.461, N.480, R.484, D.491 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.71, A:W.72, A:L.116, A:I.118, A:A.147, A:L.221, A:W.247, A:F.394 Hydrogen bonds: A:G.117, A:R.171, A:R.171, A:Q.349, A:N.480 pi-Stacking: A:H.149, A:H.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

May-Dracka, T.L. et al., Discovery of Phospholipase D Inhibitors with Improved Drug-like Properties and Central Nervous System Penetrance. Acs Med.Chem.Lett. (2022)

Release Date

2023-01-25

Peptides

Phospholipase D2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Phospholipase D2

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