SMTL ID : 8hef.1

The Crystal structure of deuterated S-217622 (Ensitrelvir) bound to the main protease (3CLpro/Mpro) of SARS-CoV-2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.51 Å

Oligo State

homo-dimer

Ligands

2 x 7YY: 6-[(6-chloranyl-2-methyl-indazol-5-yl)amino]-3-[(1-methyl-1,2,4-triazol-3-yl)methyl]-1-[[2,4,5-tris(fluoranyl)phenyl]methyl]-1,3,5-triazine-2,4-dione(Non-covalent)

7YY.1: 18 residues within 4Å: Chain A: T.24, T.25, T.26, H.41, M.49, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, D.187, R.188, Q.189 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.25, A:M.165 Hydrogen bonds: A:T.26, A:G.143, A:S.144, A:S.144, A:C.145, A:E.166 pi-Stacking: A:H.41 7YY.3: 18 residues within 4Å: Chain B: T.24, T.25, T.26, L.27, H.41, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, D.187, R.188, Q.189 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:T.25, B:M.165 Hydrogen bonds: B:T.26, B:G.143, B:S.144, B:S.144, B:C.145, B:E.166 pi-Stacking: B:H.41

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: N.84, E.178, N.180 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.84, A:N.180, A:N.180 Water bridges: A:Q.83, A:E.178, A:E.178

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, Y. et al., Synthesis of deuterated S-217622 (Ensitrelvir) with antiviral activity against coronaviruses including SARS-CoV-2. Antiviral Res. (2023)

Release Date

2023-04-19

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase

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