SMTL ID : 7tq3.1

Structure of SARS-CoV-2 3CL protease in complex with the cyclopropane based inhibitor 5c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x IS5: N~2~-({[(1R,2R)-2-(3-fluorophenyl)cyclopropyl]methoxy}carbonyl)-N-{(2S)-1-oxo-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-leucinamide(Covalent)

IS5.1: 17 residues within 4Å: Chain A: H.45, F.144, L.145, N.146, S.148, C.149, H.167, H.168, M.169, E.170, L.171, P.172, H.176, D.191, Q.193, T.194, A.195 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:P.172, A:A.195 Hydrogen bonds: A:S.148, A:H.168, A:E.170, A:E.170, A:Q.193, A:Q.193 Water bridges: A:G.147, A:G.147 Halogen bonds: A:Q.193 IS5.2: 17 residues within 4Å: Chain B: H.45, F.144, L.145, N.146, S.148, C.149, H.167, H.168, M.169, E.170, L.171, P.172, H.176, D.191, Q.193, T.194, A.195 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:H.45, B:M.169, B:A.195 Hydrogen bonds: B:H.168, B:E.170, B:E.170, B:Q.193, B:Q.193 Water bridges: B:G.147, B:G.147 Halogen bonds: B:Q.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dampalla, C.S. et al., Broad-Spectrum Cyclopropane-Based Inhibitors of Coronavirus 3C-like Proteases: Biochemical, Structural, and Virological Studies. Acs Pharmacol Transl Sci (2023)

Release Date

2022-06-22

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase

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