SMTL ID : 8eyj.1

Crystal Structure of uncleaved SARS-CoV-2 Main Protease C145S mutant in complex with Nirmatrelvir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

homo-dimer

Ligands

2 x 4WI: (1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide(Covalent)

4WI.1: 23 residues within 4Å: Chain A: L.28, H.42, M.50, Y.55, F.141, L.142, N.143, G.144, S.145, S.146, H.164, H.165, M.166, E.167, L.168, P.169, H.173, D.188, R.189, Q.190, T.191, Q.193 Chain B: Q.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:H.42, A:E.167 Hydrogen bonds: A:H.42, A:G.144, A:S.145, A:S.146, A:H.164, A:H.165, A:E.167, A:E.167, A:E.167, A:E.167, A:T.191 Halogen bonds: A:Q.193 4WI.2: 23 residues within 4Å: Chain B: L.28, H.42, C.45, M.50, Y.55, F.141, L.142, N.143, G.144, S.145, S.146, H.164, H.165, M.166, E.167, L.168, P.169, H.173, D.188, R.189, Q.190, T.191, Q.193 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:H.42, B:M.166, B:E.167 Hydrogen bonds: B:H.42, B:F.141, B:G.144, B:S.145, B:S.146, B:H.164, B:H.165, B:E.167, B:E.167, B:E.167 Halogen bonds: B:R.189, B:Q.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Noske, G.D. et al., An in-solution snapshot of SARS-COV-2 main protease maturation process and inhibition. Nat Commun (2023)

Release Date

2022-11-16

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase nsp5