SMTL ID : 7uua.1

Structure of the SARS-CoV-2 main protease in complex with inhibitor MPI8

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x NOL: N-[(BENZYLOXY)CARBONYL]-O-(TERT-BUTYL)-L-THREONYL-3-CYCLOHEXYL-N-[(1S)-2-HYDROXY-1-{[(3S)-2-OXOPYRROLIDIN-3-YL]METHYL}ETHYL]-L-ALANINAMIDE(Covalent)

NOL.1: 21 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, L.167, P.168, H.172, D.187, R.188, Q.189, T.190, A.191, Q.192 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:P.168 Hydrogen bonds: A:N.142, A:G.143, A:S.144, A:C.145, A:H.164, A:E.166, A:E.166, A:E.166, A:E.166, A:Q.189 pi-Stacking: A:H.41 NOL.2: 21 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, L.167, P.168, H.172, D.187, R.188, Q.189, T.190, A.191, Q.192 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:P.168 Hydrogen bonds: B:N.142, B:G.143, B:S.144, B:C.145, B:H.164, B:E.166, B:E.166, B:E.166, B:Q.189 pi-Stacking: B:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, K.S. et al., A Novel Y-Shaped, S-O-N-O-S-Bridged Cross-Link between Three Residues C22, C44, and K61 Is Frequently Observed in the SARS-CoV-2 Main Protease. Acs Chem.Biol. (2023)

Release Date

2023-01-25

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5