SMTL ID : 8v8e.1 (1 other biounit)

Room-temperature X-ray structure of SARS-CoV-2 main protease catalytic domain (residues 1-199-6H) in complex with ensitrelvir (ESV)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x GLY- THR- ASP- THR- THR- LEU- GLU- HIS- HIS: peptide(Non-covalent)

GLY-THR-ASP-THR-THR-LEU-GLU-HIS-HIS.1: 6 residues within 4Å: Chain A: T.21, G.23, T.24, R.60, K.61, L.67 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.23 Water bridges: A:G.23 Salt bridges: A:K.61

1 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.2: 17 residues within 4Å: Chain A: T.24, T.25, T.26, 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 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:T.25 Hydrogen bonds: A:T.26, A:N.142, A:G.143, A:S.144, A:S.144, A:C.145, A:E.166 Water bridges: A:Q.189 pi-Stacking: A:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kovalevsky, A. et al., Visualizing the Active Site Oxyanion Loop Transition Upon Ensitrelvir Binding and Transient Dimerization of SARS-CoV-2 Main Protease. J.Mol.Biol. (2024)

Release Date

2024-05-29

Peptides

3C-like proteinase nsp5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

3C-like proteinase nsp5

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