SMTL ID : 8yx2.1 (1 other biounit)

Crystal Structure of SARS CoV-2 Papain-like Protease PLpro-C111S in Complex with GZNL-P4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: E.125, P.241, E.308, N.309 No protein-ligand interaction detected (PLIP) ZN.2: 4 residues within 4Å: Chain A: C.190, C.193, C.227, G.228 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.190, A:C.227, A:C.227

1 x 01: ~{N}-[1-(1,2-dihydroacenaphthylen-5-yl)cyclopropyl]-2-methyl-5-(4-methylpiperazin-1-yl)benzamide

01.3: 13 residues within 4Å: Chain A: K.158, L.163, G.164, D.165, E.168, M.209, P.248, P.249, Y.265, Y.269, Q.270, Y.274, T.302 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.163, A:P.248, A:P.248, A:P.249, A:Y.265, A:Y.265, A:Y.265, A:Y.269, A:Y.269, A:Q.270, A:T.302 Hydrogen bonds: A:D.165, A:D.165, A:Q.270 Salt bridges: A:E.168 pi-Stacking: A:Y.269, A:Y.269, A:Y.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, Y. et al., Discovery of orally bioavailable SARS-CoV-2 papain-like protease inhibitor as a potential treatment for COVID-19. Nat Commun (2024)

Release Date

2024-12-04

Peptides

Papain-like protease nsp3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Papain-like protease nsp3

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