SMTL ID : 8gfu.1

Room temperature X-ray structure of truncated SARS-CoV-2 main protease C145A mutant, residues 1-304, in complex with nirmatrelvir (NMV)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x ZGW: Nirmatrelvir(Non-covalent)

ZGW.1: 20 residues within 4Å: Chain A: H.41, M.49, F.140, L.141, N.142, G.143, S.144, A.145, H.163, H.164, M.165, E.166, L.167, P.168, H.172, D.187, R.188, Q.189, T.190, Q.192 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.41, A:E.166 Hydrogen bonds: A:F.140, A:G.143, A:S.144, A:A.145, A:H.164, A:E.166, A:E.166, A:T.190 Halogen bonds: A:Q.192 ZGW.2: 20 residues within 4Å: Chain B: H.41, M.49, F.140, L.141, N.142, G.143, S.144, A.145, H.163, H.164, M.165, E.166, L.167, P.168, H.172, D.187, R.188, Q.189, T.190, Q.192 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:H.41, B:E.166 Hydrogen bonds: B:F.140, B:G.143, B:S.144, B:A.145, B:H.164, B:E.166, B:E.166, B:E.166, B:T.190 Halogen bonds: B:Q.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kovalevsky, A. et al., Contribution of the catalytic dyad of SARS-CoV-2 main protease to binding covalent and noncovalent inhibitors. J.Biol.Chem. (2023)

Release Date

2023-07-12

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