SMTL ID : 8hqj.1

Crystal structure of SARS-Cov-2 main protease Y54C mutant in complex with inhibitor YH-53

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.74 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(Covalent)

HUR.1: 17 residues within 4Å: Chain A: H.39, F.138, L.139, N.140, S.142, C.143, H.161, H.162, M.163, E.164, P.166, H.170, D.185, R.186, Q.187, T.188, A.189 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:P.166, A:D.185, A:A.189 Hydrogen bonds: A:F.138, A:G.141, A:S.142, A:C.143, A:H.162, A:E.164, A:E.164, A:Q.187 HUR.2: 20 residues within 4Å: Chain B: T.23, L.25, H.39, F.138, L.139, N.140, G.141, S.142, C.143, H.161, H.162, M.163, E.164, P.166, H.170, D.185, R.186, Q.187, T.188, A.189 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:T.23, B:Q.187, B:A.189 Hydrogen bonds: B:F.138, B:G.141, B:S.142, B:C.143, B:H.162, B:E.164, B:E.164, B:E.164, B:Q.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, X.L. et al., Crystal structure of SARS-Cov-2 main protease Y54C mutant in complex with inhibitor YH-53. To Be Published

Release Date

2023-12-20

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase nsp5

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