SMTL ID : 9fhq.1

Crystal structure of SARS-CoV-2 Mpro in complex with RHTCR04

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x 01: ~{tert}-butyl ~{N}-[1-[(2~{S})-1-[[(2~{S})-4-azanyl-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]amino]-3-cyclopropyl-1-oxidanylidene-propan-2-yl]-6-oxidanylidene-pyrimidin-5-yl]carbamate

01.1: 18 residues within 4Å: Chain A: H.41, M.49, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, L.167, P.168, H.172, D.187, Q.189 Chain B: S.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:M.165, A:D.187 Hydrogen bonds: A:N.142, A:G.143, A:S.144, A:C.145, A:H.164, A:E.166, A:E.166, A:Q.189 Water bridges: A:N.142 01.2: 17 residues within 4Å: Chain B: H.41, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, L.167, P.168, H.172, D.187, R.188, Q.189 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:M.165, B:D.187 Hydrogen bonds: B:N.142, B:G.143, B:S.144, B:C.145, B:H.164, B:E.166, B:E.166, B:E.166, B:Q.189, A:S.1, A:S.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Akula, R.K. et al., Structure-Based Optimization of Pyridone alpha-Ketoamides as Inhibitors of the SARS-CoV-2 Main Protease. J.Med.Chem. (2025)

Release Date

2025-01-29

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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