ISDA

Deposition Date 2023-04-16

Release Date 2024-05-01

Last Version Date 2025-05-07

Entry Detail

PDB ID:

8J36

Keywords:

VIRAL PROTEIN/INHIBITOR

Title:

Crystal structure of SARS-Cov-2 main protease M49I mutant in complex with PF00835231

Biological Source:

Source Organism:

Severe acute respiratory syndrome coronavirus 2 (Taxon ID: 2697049)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.21 Å

R-Value Free:

0.25

R-Value Work:

0.20

R-Value Observed:

0.20

Space Group:

P 1 21 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:3C-like proteinase nsp5
Mutations:M491I
Chain IDs:A, B
Chain Length:298
Number of Molecules:2
Biological Source:Severe acute respiratory syndrome coronavirus 2

UniProt ID:P0DTD1 Pfam ID:PF05409

Ligand Molecules

V2M

Primary Citation

Structural basis for the inhibition of coronaviral main proteases by PF-00835231.

Zhou, X, Lu, X, Lin, C, Zou, X, Li, W, Zeng, X, Wang, J, Zeng, P, Wang, W, Zhang, J, Jiang, H, Li, J.Show

Acta Biochim.Biophys.Sin. 56 1813 1822 (2024)

PMID: 39076076 DOI: 10.3724/abbs.2024122

Abstact

The main protease (M pro) of coronaviruses plays a key role in viral replication, thus serving as a hot target for drug design. PF-00835231 is a promising inhibitor of SARS-CoV-2 M pro. Here, we report the inhibitory potency of PF-00835231 against SARS-CoV-2 M pro and seven M pro mutants (G15S, M49I, Y54C, K90R, P132H, S46F, and V186F) from SARS-CoV-2 variants. The results confirm that PF-00835231 has broad-spectrum inhibition against various coronaviral M pros. In addition, the crystal structures of SARS-CoV-2 M pro, SARS-CoV M pro, MERS-CoV M pro, and seven SARS-CoV-2 M pro mutants (G15S, M49I, Y54C, K90R, P132H, S46F, and V186F) in complex with PF-00835231 are solved. A detailed analysis of these structures reveals key determinants essential for inhibition and elucidates the binding modes of different coronaviral M pros. Given the importance of the main protease for the treatment of coronaviral infection, structural insights into M pro inhibition by PF-00835231 can accelerate the design of novel antivirals with broad-spectrum efficacy against different human coronaviruses.

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Primary Citation of related structures