SMTL ID : 6c9a.1

Cryo-EM structure of mouse TPC1 channel in the PtdIns(3,5)P2-bound state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

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: 1 residues within 4Å: Chain A: N.600 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 1 residues within 4Å: Chain B: N.600 No protein-ligand interaction detected (PLIP)

2 x EUJ: (2R)-3-{[(S)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate(Non-covalent)

EUJ.3: 12 residues within 4Å: Chain A: N.85, K.87, H.171, K.172, R.173, V.176, R.220, R.221, R.224, F.227, Q.228, K.331 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:V.176, A:F.227, A:F.227 Hydrogen bonds: A:N.85, A:R.173, A:R.173, A:Q.228, A:K.331 Salt bridges: A:K.87, A:H.171, A:K.172, A:R.220, A:R.221, A:R.224, A:R.224, A:K.331, A:K.331 EUJ.5: 12 residues within 4Å: Chain B: N.85, K.87, H.171, K.172, R.173, V.176, R.220, R.221, R.224, F.227, Q.228, K.331 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:V.176, B:V.176, B:R.224, B:F.227, B:F.227 Hydrogen bonds: B:N.85, B:H.171, B:K.172, B:R.173, B:Q.228, B:K.331 Salt bridges: B:K.87, B:H.171, B:K.172, B:R.173, B:R.173, B:R.220, B:R.221, B:R.224, B:R.224, B:K.331, B:K.331

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

NAG.4: 3 residues within 4Å: Chain A: F.610, N.612, T.619 No protein-ligand interaction detected (PLIP) NAG.6: 3 residues within 4Å: Chain B: F.610, N.612, T.619 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

She, J. et al., Structural insights into the voltage and phospholipid activation of the mammalian TPC1 channel. Nature (2018)

Release Date

2018-04-04

Peptides

Two pore calcium channel protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Membrane

We predict this structure to be a membrane protein.
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Two pore calcium channel protein 1

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