SMTL ID : 7dpp.1

SARS-CoV-2 3CL protease (3CLpro) in complex with myricetin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x MYC: 3,5,7-TRIHYDROXY-2-(3,4,5-TRIHYDROXYPHENYL)-4H-CHROMEN-4-ONE(Covalent)

MYC.1: 12 residues within 4Å: Chain A: T.25, T.26, L.27, H.41, G.143, S.144, C.145, H.164, M.165, D.187, R.188, Q.189 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.26, A:G.143, A:C.145, A:D.187, A:Q.189 Water bridges: A:H.41 pi-Stacking: A:H.41, A:H.41 MYC.2: 12 residues within 4Å: Chain B: T.25, T.26, L.27, H.41, G.143, S.144, C.145, H.164, M.165, D.187, R.188, Q.189 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:T.26, B:G.143, B:C.145, B:D.187, B:Q.189 Water bridges: B:H.41 pi-Stacking: B:H.41, B:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, H. et al., Identification of pyrogallol as a warhead in design of covalent inhibitors for the SARS-CoV-2 3CL protease. Nat Commun (2021)

Release Date

2021-05-12

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase

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