SMTL ID : 8wsm.1

NLRP3 NACHT domain in complex with compound 32

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: T.104 Ligands: ADP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.104, H2O.1, H2O.1, H2O.1, H2O.1

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 18 residues within 4Å: Chain A: R.38, Y.39, T.40, L.42, A.98, G.100, I.101, G.102, K.103, T.104, I.105, F.244, Y.252, P.283, L.284, W.287, H.393 Ligands: MG.1 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:T.40, A:T.40, A:G.100, A:I.101, A:G.102, A:K.103, A:T.104, A:T.104, A:T.104, A:I.105 Water bridges: A:H.393 Salt bridges: A:K.103, A:H.393 pi-Stacking: A:F.244

1 x XE3: 2-[[2-methyl-5-(trifluoromethyl)phenyl]amino]-~{N}-(1,4-oxazepan-4-ylsulfonyl)-1,3-oxazole-4-carboxamide(Non-covalent)

XE3.3: 16 residues within 4Å: Chain A: A.98, A.99, R.222, P.223, V.224, M.279, F.281, V.285, T.310, Y.314, I.445, F.446, R.449, E.500, Y.503, M.532 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.285, A:T.310, A:F.446 Hydrogen bonds: A:A.99, A:A.99, A:R.222, A:V.224 Salt bridges: A:E.500 pi-Stacking: A:F.446

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ohba, Y. et al., Discovery of Novel NLRP3 Inflammasome Inhibitors Composed of an Oxazole Scaffold Bearing an Acylsulfamide. Acs Med.Chem.Lett. (2023)

Release Date

2023-11-22

Peptides

NACHT, LRR and PYD domains-containing protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NACHT, LRR and PYD domains-containing protein 3

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