SMTL ID : 9lvt.1

Crystal structure of SARS-CoV-2 3CL protease in complex with compound 4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x 01: 1-(2-azanylideneethyl)-6-(1,3-dihydroisoindol-2-yl)-3-(5-methylpyridin-3-yl)-5-[[3,4,5-tris(fluoranyl)phenyl]methyl]pyrimidine-2,4-dione

01.1: 24 residues within 4Å: Chain A: T.27, T.28, L.29, H.43, C.46, T.47, S.48, M.51, F.142, L.143, N.144, G.145, S.146, C.147, H.165, H.166, M.167, E.168, V.188, D.189, R.190, Q.191, T.192, Q.194 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:T.27, A:M.51, A:M.167, A:E.168 Hydrogen bonds: A:T.28, A:G.145, A:S.146, A:C.147, A:E.168 Halogen bonds: A:V.188, A:T.192 01.2: 23 residues within 4Å: Chain B: T.27, T.28, L.29, H.43, C.46, T.47, S.48, M.51, F.142, L.143, N.144, G.145, S.146, C.147, H.165, H.166, M.167, E.168, H.174, V.188, D.189, R.190, Q.191 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:T.27, B:M.167, B:E.168 Hydrogen bonds: B:T.28, B:G.145, B:S.146, B:C.147, B:E.168 Halogen bonds: B:V.188

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unoh, Y. et al., Discovery of The Clinical Candidate S-892216: A Second-Generation of SARS-CoV-2 3CL Protease Inhibitor for Treating COVID-19. To Be Published

Release Date

2025-05-14

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase

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