SMTL ID : 8ywy.1

Crystal structure of SARS-Cov-2 main protease E166N mutant in complex with Bofutrelvir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x FHR: ~{N}-[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]-1~{H}-indole-2-carboxamide(Non-covalent)

FHR.1: 20 residues within 4Å: Chain A: H.39, M.47, Y.52, F.138, L.139, N.140, G.141, S.142, C.143, H.161, H.162, M.163, N.164, P.166, H.170, D.185, R.186, Q.187, T.188, A.189 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Q.187 Hydrogen bonds: A:G.141, A:S.142, A:C.143, A:H.162, A:N.164, A:N.164 Water bridges: A:N.164, A:N.164 FHR.2: 20 residues within 4Å: Chain B: H.39, M.47, Y.52, F.138, L.139, N.140, G.141, S.142, C.143, H.161, H.162, M.163, N.164, P.166, H.170, D.185, R.186, Q.187, T.188, A.189 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Q.187 Hydrogen bonds: B:G.141, B:S.142, B:C.143, B:H.162, B:N.164, B:N.164 Water bridges: B:N.164, B:N.164

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W. et al., Inhibitory efficacy and structural insights of Bofutrelvir against SARS-CoV-2 M pro mutants and MERS-CoV M pro. Commun Biol (2025)

Release Date

2025-04-09

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5