ISDA: 7BUY

Deposition Date 2020-04-08

Release Date 2020-04-29

Last Version Date 2024-11-06

Entry Detail

PDB ID:

7BUY

Keywords:

VIRAL PROTEIN

Title:

The crystal structure of COVID-19 main protease in complex with carmofur

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:

1.60 Å

R-Value Free:

0.20

R-Value Work:

0.17

R-Value Observed:

0.18

Space Group:

C 1 2 1

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:3C-like proteinase
Gene (Uniprot):rep
Chain IDs:A
Chain Length:306
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus 2

UniProt ID:P0DTD1 Pfam ID:PF05409 EC:2.7.7.48

Ligand Molecules

DMS

JRY

Primary Citation

Structural basis for the inhibition of SARS-CoV-2 main protease by antineoplastic drug carmofur.

Jin, Z, Zhao, Y, Sun, Y, Zhang, B, Wang, H, Wu, Y, Zhu, Y, Zhu, C, Hu, T, Du, X, Duan, Y, Yu, J, Yang, X, Yang, X, Yang, K, Liu, X, Guddat, L.W, Xiao, G, Zhang, L, Yang, H, Rao, Z.Show

Nat.Struct.Mol.Biol. 27 529 532 (2020)

PMID: 32382072 DOI: 10.1038/s41594-020-0440-6

Abstact

The antineoplastic drug carmofur is shown to inhibit the SARS-CoV-2 main protease (Mpro). Here, the X-ray crystal structure of Mpro in complex with carmofur reveals that the carbonyl reactive group of carmofur is covalently bound to catalytic Cys145, whereas its fatty acid tail occupies the hydrophobic S2 subsite. Carmofur inhibits viral replication in cells (EC50 = 24.30 μM) and is a promising lead compound to develop new antiviral treatment for COVID-19.

Legend

Protein

Chemical

Disease

Primary Citation of related structures