SMTL ID : 7sh7.1

Structure of the SARS-CoV-2 main protease in complex with inhibitor MPI87

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x 9GI: benzyl [(2S,3R)-3-tert-butoxy-1-{[(2S)-3-cyclohexyl-1-oxo-1-(2-{[(3S)-2-oxopyrrolidin-3-yl]methyl}-2-propanoylhydrazinyl)propan-2-yl]amino}-1-oxobutan-2-yl]carbamate (non-preferred name)(Covalent)

9GI.1: 19 residues within 4Å: Chain A: H.41, Y.54, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, P.168, H.172, D.187, R.188, Q.189, T.190, Q.192 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:H.41, A:E.166, A:P.168, A:Q.189 Hydrogen bonds: A:G.143, A:S.144, A:S.144, A:C.145, A:H.164, A:E.166, A:E.166, A:E.166, A:Q.189 9GI.2: 19 residues within 4Å: Chain B: H.41, Y.54, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, P.168, H.172, D.187, R.188, Q.189, T.190, Q.192 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:H.41, B:E.166, B:P.168, B:Q.189 Hydrogen bonds: B:G.143, B:S.144, B:S.144, B:C.145, B:H.164, B:E.166, B:E.166, B:E.166, B:E.166, B:Q.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khatua, K. et al., An Azapeptide Platform in Conjunction with Covalent Warheads to Uncover High-Potency Inhibitors for SARS-CoV-2 Main Protease. Biorxiv (2023)

Release Date

2023-04-12

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5

Related Entries With Identical Sequence