SMTL ID : 9mvm.1

Crystal Structure of SARS-CoV-2 Main Protease (Mpro)in Complex with Inhibitor AVI-3318

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-dimer

Ligands

2 x 01: 1-[(4-chlorothiophen-2-yl)methyl]-3-[(2-oxo-1,2-dihydropyridin-3-yl)methyl]-1,3-diazinane-2,4-dione

01.1: 16 residues within 4Å: Chain A: H.49, F.148, L.149, N.150, G.151, S.152, C.153, H.171, H.172, M.173, E.174, H.180, D.195, R.196, Q.197 Chain B: S.9 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:E.174 Hydrogen bonds: A:G.151, A:S.152, A:E.174, B:S.9 pi-Stacking: A:H.49 pi-Cation interactions: A:H.49 01.2: 16 residues within 4Å: Chain A: S.9 Chain B: H.49, F.148, L.149, N.150, G.151, S.152, C.153, H.171, H.172, M.173, E.174, H.180, D.195, R.196, Q.197 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:E.174 Hydrogen bonds: B:F.148, B:G.151, B:S.152, B:E.174 pi-Stacking: B:H.49 pi-Cation interactions: B:H.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Detomasi, T.C. et al., Structure-based discovery of highly bioavailable, covalent, broad-spectrum coronavirus M Pro inhibitors with potent in vivo efficacy. Sci Adv (2025)

Release Date

2025-07-23

Peptides

Replicase polyprotein 1ab: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Replicase polyprotein 1ab