SMTL ID : 7ygq.1

Crystal structure of SARS main protease in complex with inhibitor YH-53

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-dimer

Ligands

2 x HUR: N-[(2S)-1-[[(2S)-1-(1,3-benzothiazol-2-yl)-1-oxidanylidene-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-4-methoxy-1H-indole-2-carboxamide(Non-covalent)(Covalent)

HUR.1: 20 residues within 4Å: Chain A: T.24, L.26, H.40, M.48, F.139, L.140, N.141, G.142, S.143, C.144, H.162, H.163, M.164, E.165, P.167, H.171, R.187, Q.188, T.189, A.190 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:T.24, A:Q.188, A:A.190 Hydrogen bonds: A:F.139, A:G.142, A:S.143, A:S.143, A:C.144, A:H.163, A:E.165, A:E.165, A:Q.188 HUR.2: 20 residues within 4Å: Chain B: L.26, H.40, D.47, F.139, L.140, N.141, G.142, S.143, C.144, H.162, H.163, M.164, E.165, P.167, H.171, D.186, R.187, Q.188, T.189, A.190 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:D.47, B:Q.188, B:A.190 Hydrogen bonds: B:F.139, B:G.142, B:S.143, B:S.143, B:C.144, B:H.163, B:E.165, B:E.165, B:Q.188, B:Q.188

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, X. et al., Structural Basis for the Inhibition of Coronaviral Main Proteases by a Benzothiazole-Based Inhibitor. Viruses (2022)

Release Date

2022-12-21

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase nsp5