SMTL ID : 5u1x.1

Crystal structure of the ATP-gated P2X7 ion channel bound to allosteric antagonist JNJ47965567

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-trimer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: N.163, S.164, E.166, N.167 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain B: N.163, S.164, E.166, N.167 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 4 residues within 4Å: Chain C: N.163, S.164, E.166, N.167 No protein-ligand interaction detected (PLIP)

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

NAG.2: 2 residues within 4Å: Chain A: N.193, T.195 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.195 NAG.3: 1 residues within 4Å: Chain A: N.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.182 NAG.6: 2 residues within 4Å: Chain B: N.193, T.195 No protein-ligand interaction detected (PLIP) NAG.7: 1 residues within 4Å: Chain B: N.182 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.182 NAG.10: 2 residues within 4Å: Chain C: N.193, T.195 No protein-ligand interaction detected (PLIP) NAG.11: 1 residues within 4Å: Chain C: N.182 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.182

3 x 7RV: N-{[4-(4-phenylpiperazin-1-yl)oxan-4-yl]methyl}-2-(phenylsulfanyl)pyridine-3-carboxamide(Non-covalent)

7RV.4: 22 residues within 4Å: Chain A: Q.96, W.147, Y.275, Y.278, E.285 Chain C: V.67, F.68, A.71, D.72, Y.73, T.74, F.75, P.76, F.83, M.85, F.88, K.90, F.273, Y.275, K.277, I.290, V.292 15 PLIP interactions: 11 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:F.68, C:F.68, C:F.75, C:F.75, C:Y.275, C:I.290, C:I.290, A:Q.96, A:W.147, A:E.285 Hydrogen bonds: C:D.72, C:K.90, C:K.277 pi-Stacking: C:F.88, A:Y.275 7RV.8: 22 residues within 4Å: Chain A: V.67, F.68, A.71, D.72, Y.73, T.74, F.75, P.76, F.83, M.85, F.88, K.90, F.273, Y.275, K.277, I.290, V.292 Chain B: Q.96, W.147, Y.275, Y.278, E.285 15 PLIP interactions: 4 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:Q.96, B:W.147, B:E.285, A:F.68, A:F.68, A:F.75, A:F.75, A:Y.275, A:I.290, A:I.290 pi-Stacking: B:Y.275, A:F.88 Hydrogen bonds: A:D.72, A:K.90, A:K.277 7RV.12: 22 residues within 4Å: Chain B: V.67, F.68, A.71, D.72, Y.73, T.74, F.75, P.76, F.83, M.85, F.88, K.90, F.273, Y.275, K.277, I.290, V.292 Chain C: Q.96, W.147, Y.275, Y.278, E.285 15 PLIP interactions: 11 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:F.68, B:F.68, B:F.75, B:F.75, B:Y.275, B:I.290, B:I.290, C:Q.96, C:W.147, C:E.285 Hydrogen bonds: B:D.72, B:K.90, B:K.277 pi-Stacking: B:F.88, C:Y.275

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karasawa, A. et al., Structural basis for subtype-specific inhibition of the P2X7 receptor. Elife (2016)

Release Date

2017-01-04

Peptides

P2X purinoceptor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Membrane

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

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