SMTL ID : 8hhu.1

Crystal structure of the SARS-CoV-2 main protease in complex with SY110

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

homo-dimer

Ligands

2 x LVX: (1~{R})-3,3-bis(fluoranyl)-~{N}-[(2~{R})-3-methoxy-1-oxidanylidene-1-[[(2~{R},3~{S})-3-oxidanyl-4-oxidanylidene-1-phenyl-4-(1,3-thiazol-2-ylmethylamino)butan-2-yl]amino]propan-2-yl]cyclohexane-1-carboxamide(Covalent)

LVX.1: 16 residues within 4Å: Chain A: 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, Q.189 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:T.25, A:Q.189 Hydrogen bonds: A:G.143, A:S.144, A:C.145, A:H.164 LVX.2: 16 residues within 4Å: Chain B: 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, Q.189 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:T.25, B:Q.189 Hydrogen bonds: B:G.143, B:S.144, B:C.145, B:H.164

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, C. et al., A new generation M pro inhibitor with potent activity against SARS-CoV-2 Omicron variants. Signal Transduct Target Ther (2023)

Release Date

2023-03-29

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5

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