SMTL ID : 5u1u.1

Crystal structure of the ATP-gated P2X7 ion channel bound to allosteric antagonist A740003

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

homo-trimer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.163, 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.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.182 NAG.3: 2 residues within 4Å: Chain A: N.193, T.195 No protein-ligand interaction detected (PLIP) NAG.5: 4 residues within 4Å: Chain B: N.163, S.164, E.166, N.167 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.167 NAG.6: 1 residues within 4Å: Chain B: N.182 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.182 NAG.7: 2 residues within 4Å: Chain B: N.193, T.195 No protein-ligand interaction detected (PLIP) NAG.9: 4 residues within 4Å: Chain C: N.163, S.164, E.166, N.167 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.167 NAG.10: 1 residues within 4Å: Chain C: N.182 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.182 NAG.11: 2 residues within 4Å: Chain C: N.193, T.195 No protein-ligand interaction detected (PLIP)

3 x 7S4: N-{(1R)-1-[N''-cyano-N'-(quinolin-5-yl)carbamimidamido]-2,2-dimethylpropyl}-2-(3,4-dimethoxyphenyl)acetamide(Non-covalent)

7S4.4: 15 residues within 4Å: Chain A: W.147, Y.275, A.276, Y.278 Chain C: F.68, D.72, F.75, P.76, M.85, F.88, K.90, Y.275, I.290 Ligands: 7S4.8, 7S4.12 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:W.147, A:Y.278, C:F.88, C:Y.275, C:I.290 Hydrogen bonds: C:D.72, C:D.72, C:D.72, C:K.90 pi-Stacking: C:F.68 7S4.8: 15 residues within 4Å: Chain A: F.68, D.72, F.75, P.76, M.85, F.88, K.90, Y.275, I.290 Chain B: W.147, Y.275, A.276, Y.278 Ligands: 7S4.4, 7S4.12 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.88, A:Y.275, A:I.290, B:W.147, B:Y.278 Hydrogen bonds: A:D.72, A:D.72, A:D.72, A:K.90 pi-Stacking: A:F.68 7S4.12: 15 residues within 4Å: Chain B: F.68, D.72, F.75, P.76, M.85, F.88, K.90, Y.275, I.290 Chain C: W.147, Y.275, A.276, Y.278 Ligands: 7S4.4, 7S4.8 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:F.88, B:Y.275, B:I.290, C:W.147, C:Y.278 Hydrogen bonds: B:D.72, B:D.72, B:D.72, B:K.90 pi-Stacking: B:F.68

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

2017-01-11

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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