SMTL ID : 7zqw.1

Structure of the SARS-CoV-1 main protease in complex with AG7404

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

homo-dimer

Ligands

2 x XNV: ethyl (4R)-4-({(2S)-2-[3-{[(5-methyl-1,2-oxazol-3-yl)carbonyl]amino}-2-oxopyridin-1(2H)-yl]pent-4-ynoyl}amino)-5-[(3S)-2-oxopyrrolidin-3-yl]pentanoate(Covalent)

XNV.1: 19 residues within 4Å: Chain A: T.26, L.27, H.41, M.49, F.140, 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, T.190 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.41, A:D.187, A:Q.189, A:Q.189 Hydrogen bonds: A:G.143, A:C.145, A:H.164, A:E.166, A:E.166, A:E.166 Salt bridges: A:H.41 XNV.2: 19 residues within 4Å: Chain B: T.26, L.27, H.41, M.49, F.140, 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, T.190 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:H.41, B:D.187, B:Q.189, B:Q.189 Hydrogen bonds: B:G.143, B:C.145, B:H.164, B:E.166, B:E.166, B:E.166 Salt bridges: B:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fabrega-Ferrer, M. et al., Structure and inhibition of SARS-CoV-1 and SARS-CoV-2 main proteases by oral antiviral compound AG7404. Antiviral Res. (2022)

Release Date

2022-12-28

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5

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