SMTL ID : 8ddm.1

Crystal Structure of SARS-CoV-2 Main Protease (Mpro) E166R Mutant in Complex with Inhibitor GC376

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.78 Å

Oligo State

homo-dimer

Ligands

2 x K36: (1S,2S)-2-({N-[(benzyloxy)carbonyl]-L-leucyl}amino)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid(Covalent)

K36.1: 16 residues within 4Å: Chain A: H.41, M.49, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, R.166, H.172, D.187, Q.189 Chain B: S.1 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:H.41, A:M.49, A:R.166, A:D.187 Hydrogen bonds: A:N.142, A:G.143, A:S.144, A:S.144, A:C.145, A:H.164, A:R.166, A:Q.189, B:S.1 Water bridges: B:S.1 K36.2: 16 residues within 4Å: Chain A: S.1 Chain B: H.41, M.49, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, R.166, H.172, D.187, Q.189 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:H.41, B:M.49, B:R.166, B:D.187 Hydrogen bonds: B:N.142, B:G.143, B:S.144, B:S.144, B:C.145, B:H.164, B:R.166, B:Q.189, A:S.1 Water bridges: A:S.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ou, J. et al., A yeast-based system to study SARS-CoV-2 M pro structure and to identify nirmatrelvir resistant mutations. Biorxiv (2022)

Release Date

2022-08-31

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5