SMTL ID : 9mvq.1

Crystal Structure of SARS-CoV-2 Main Protease (Mpro) variant Q192T in Complex with Inhibitor AVI-4303

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-dimer

Ligands

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 2 residues within 4Å: Chain A: E.166 Ligands: 01.2 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.166, A:E.166, A:L.167

2 x 01: (3M,5P,6M)-5-(1H-1,2,3-benzotriazol-1-yl)-6-(3-chlorophenyl)-3-(isoquinolin-4-yl)pyrimidine-2,4(1H,3H)-dione

01.2: 18 residues within 4Å: Chain A: H.41, C.44, M.49, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, V.186, D.187, R.188, Q.189 Ligands: EDO.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:H.41, A:N.142, A:M.165, A:E.166 Hydrogen bonds: A:N.142, A:G.143, A:E.166 Water bridges: A:C.145 01.4: 18 residues within 4Å: Chain B: T.25, H.41, C.44, M.49, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, V.186, D.187, R.188, Q.189 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:H.41, B:N.142, B:M.165, B:E.166 Hydrogen bonds: B:G.143, B:E.166 Water bridges: B:C.145

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 6 residues within 4Å: Chain A: S.284, A.285, L.286 Chain B: S.284, A.285, L.286 Ligand excluded by PLIP

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

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase nsp5