SMTL ID : 7h3h.1

Group deposition for crystallographic fragment screening of Coxsackievirus A16 (G-10) 2A protease -- Crystal structure of Coxsackievirus A16 (G-10) 2A protease in complex with Z57472297 (A71EV2A-x0395)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.41 Å

Oligo State

monomer

Ligands

2 x AYV: 1-[2-methyl-1,3-bis(oxidanyl)propan-2-yl]-3-phenyl-urea(Non-covalent)

AYV.1: 7 residues within 4Å: Chain A: C.58, T.60, G.61, R.115, C.116, Q.117 Ligands: AYV.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:R.115 Hydrogen bonds: A:T.60, A:R.115, A:Q.117, A:Q.117 Water bridges: A:T.60 AYV.2: 7 residues within 4Å: Chain A: V.62, Y.63, Y.64, H.71, I.113, R.115 Ligands: AYV.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.62, A:Y.64, A:R.115 Water bridges: A:Y.64, A:I.113 pi-Stacking: A:H.71

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.56, C.58, C.116, H.118 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.56, A:C.58, A:C.116, A:H.118

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 3 residues within 4Å: Chain A: D.35, S.36, S.37 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.37 Water bridges: A:S.36 Salt bridges: A:D.35 DMS.5: 1 residues within 4Å: Chain A: V.102 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 2 residues within 4Å: Chain A: F.83, Y.94 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lithgo, R.M. et al., Crystallographic Fragment Screen of Coxsackievirus A16 2A Protease identifies new opportunities for the development of broad-spectrum anti-enterovirals. Biorxiv (2024)

Release Date

2024-04-24

Peptides

Protease 2A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protease 2A

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