SMTL ID : 3i5d.1

Crystal structure of the ATP-gated P2X4 ion channel in the closed, apo state at 3.5 Angstroms (R3)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.46 Å

Oligo State

homo-trimer

Ligands

2 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: 2 residues within 4Å: Chain A: N.186, N.188 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain C: N.186, I.187, N.188, Y.191, D.202 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:D.202

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

NAG.3: 1 residues within 4Å: Chain A: N.53 No protein-ligand interaction detected (PLIP) NAG.4: 1 residues within 4Å: Chain A: N.88 No protein-ligand interaction detected (PLIP) NAG.5: 4 residues within 4Å: Chain A: A.158, D.159, N.162, Q.222 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.162 NAG.6: 3 residues within 4Å: Chain A: R.112 Chain B: N.53, E.59 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.59, B:E.59, A:R.112 NAG.7: 2 residues within 4Å: Chain B: N.88, T.90 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.88, B:T.90 NAG.8: 3 residues within 4Å: Chain B: A.158, D.159, N.162 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.159, B:E.161 NAG.9: 4 residues within 4Å: Chain B: N.186, I.187, N.188, Y.191 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.187 Hydrogen bonds: B:N.188 NAG.10: 3 residues within 4Å: Chain C: L.51, N.53, E.59 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.51 Hydrogen bonds: C:E.59, C:E.59 NAG.11: 1 residues within 4Å: Chain C: N.88 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.88 NAG.12: 4 residues within 4Å: Chain C: A.158, D.159, E.161, N.162 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.159, C:E.161, C:N.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kawate, T. et al., Crystal structure of the ATP-gated P2X(4) ion channel in the closed state. Nature (2009)

Release Date

2009-08-04

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