SMTL ID : 7vth.1

The crystal structure of SARS-CoV-2 3CL protease in complex with compound 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x 7XB: 2-[4-[[4-[bis(fluoranyl)methoxy]-2-methyl-phenyl]amino]-2,6-bis(oxidanylidene)-3-[[3,4,5-tris(fluoranyl)phenyl]methyl]-1,3,5-triazin-1-yl]-N-methyl-ethanamide(Non-covalent)

7XB.1: 19 residues within 4Å: Chain A: T.25, T.26, T.27, H.42, F.141, L.142, N.143, G.144, S.145, C.146, H.164, H.165, M.166, E.167, H.173, D.188, R.189, Q.190 Chain B: S.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:T.26, A:M.166 Hydrogen bonds: A:T.27, A:G.144, A:S.145, A:S.145, A:C.146, A:E.167, A:E.167 pi-Stacking: A:H.42 Halogen bonds: A:T.25 7XB.2: 18 residues within 4Å: Chain A: S.2 Chain B: T.25, T.26, T.27, H.42, F.141, L.142, N.143, G.144, S.145, C.146, H.164, H.165, M.166, E.167, H.173, D.188, R.189 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:T.26 Hydrogen bonds: B:T.27, B:G.144, B:S.145, B:S.145, B:C.146, B:E.167, B:H.173 Water bridges: B:H.42 pi-Stacking: B:H.42

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unoh, Y. et al., Discovery of S-217622, a Noncovalent Oral SARS-CoV-2 3CL Protease Inhibitor Clinical Candidate for Treating COVID-19. J.Med.Chem. (2022)

Release Date

2022-04-06

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase