SMTL ID : 8gia.2 (1 other biounit)

Crystal structure of SARS-CoV-2 (Covid-19) Nsp3 macrodomain in complex with TFMU-ADPr

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

monomer

Ligands

1 x ZJ3: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl [(2R,3S,4R,5R)-3,4-dihydroxy-5-{[2-oxo-4-(trifluoromethyl)-2H-1-benzopyran-7-yl]oxy}oxolan-2-yl]methyl dihydrogen diphosphate(Non-covalent)

ZJ3.1: 25 residues within 4Å: Chain A: A.21, D.22, I.23, A.38, A.39, N.40, K.44, H.45, G.46, G.47, G.48, V.49, A.50, A.52, L.126, L.127, S.128, A.129, G.130, I.131, F.132, A.154, V.155, F.156, L.160 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.131 Hydrogen bonds: A:D.22, A:I.23, A:N.40, A:G.46, A:G.47, A:V.49, A:S.128, A:G.130, A:I.131, A:F.132, A:F.156 Water bridges: A:A.38, A:N.40, A:A.50, A:L.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anmangandla, A. et al., A Fluorescence Polarization Assay for Macrodomains Facilitates the Identification of Potent Inhibitors of the SARS-CoV-2 Macrodomain. Acs Chem.Biol. (2023)

Release Date

2023-05-17

Peptides

Non-structural protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Non-structural protein 3

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