SMTL ID : 8jv7.1

Cryo-EM structure of the panda P2X7 receptor in complex with PPADS

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: S.164, E.166, N.167 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.167 NAG.2: 1 residues within 4Å: Chain A: N.193 No protein-ligand interaction detected (PLIP) NAG.4: 3 residues within 4Å: Chain B: S.164, E.166, N.167 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.167 NAG.5: 1 residues within 4Å: Chain B: N.193 No protein-ligand interaction detected (PLIP) NAG.7: 3 residues within 4Å: Chain C: S.164, E.166, N.167 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.167 NAG.8: 1 residues within 4Å: Chain C: N.193 No protein-ligand interaction detected (PLIP)

3 x UO6: 4-[(E)-[4-methanoyl-6-methyl-5-oxidanyl-3-(phosphonooxymethyl)pyridin-2-yl]diazenyl]benzene-1,3-disulfonic acid(Non-covalent)

UO6.3: 8 residues within 4Å: Chain A: Q.123, K.154, E.265, Y.268, R.274, K.291 Chain B: K.44, K.46 10 PLIP interactions: 2 interactions with chain B, 8 interactions with chain A Salt bridges: B:K.44, B:K.46, A:K.125, A:K.291 Hydrophobic interactions: A:Y.268 Hydrogen bonds: A:Q.123, A:Y.268, A:R.274 Water bridges: A:K.125, A:K.125 UO6.6: 9 residues within 4Å: Chain B: Q.123, K.125, K.154, E.265, Y.268, R.274, K.291 Chain C: K.44, K.46 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:Y.268 Hydrogen bonds: B:Q.123 Water bridges: B:K.125, B:K.125 Salt bridges: B:K.125, B:R.274, B:K.291, C:K.44, C:K.46 UO6.9: 9 residues within 4Å: Chain A: K.44, K.46 Chain C: Q.123, V.153, K.154, E.265, Y.268, R.274, K.291 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:Y.268 Hydrogen bonds: C:Q.123 Water bridges: C:K.125, C:K.125 Salt bridges: C:R.274, C:K.291, A:K.44, A:K.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sheng, D. et al., Structural insights into the orthosteric inhibition of P2X receptors by non-ATP-analog antagonists. Elife (2023)

Release Date

2023-11-29

Peptides

P2X purinoceptor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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P2X purinoceptor

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