SMTL ID : 7cjm.1

SARS CoV-2 PLpro in complex with GRL0617

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

monomer

Ligands

1 x TTT: 5-amino-2-methyl-N-[(1R)-1-naphthalen-1-ylethyl]benzamide(Non-covalent)

TTT.1: 10 residues within 4Å: Chain A: L.163, G.164, D.165, E.168, P.248, P.249, Y.265, Y.269, Q.270, Y.274 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.248, A:P.249, A:Y.265, A:Y.269, A:Y.269 Hydrogen bonds: A:D.165, A:Y.269, A:Q.270 pi-Stacking: A:Y.269

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 1 residues within 4Å: Chain A: D.63 No protein-ligand interaction detected (PLIP) ZN.3: 2 residues within 4Å: Chain A: H.90, D.109 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.90, A:D.109, A:D.109 ZN.4: 4 residues within 4Å: Chain A: C.190, C.193, C.225, C.227 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.190, A:C.193, A:C.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fu, Z. et al., The complex structure of GRL0617 and SARS-CoV-2 PLpro reveals a hot spot for antiviral drug discovery. Nat Commun (2021)

Release Date

2020-09-02

Peptides

Non-structural protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Non-structural protein 3