SMTL ID : 5dqq.1

Structure, inhibition and regulation of two-pore channel TPC1 from Arabidopsis thaliana

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.87 Å

Oligo State

homo-dimer

Ligands

14 x CA: CALCIUM ION(Non-functional Binders)(Non-covalent)

CA.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.2: 1 residues within 4Å: Chain A: E.364 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.364 CA.3: 3 residues within 4Å: Chain A: L.599, N.602, N.615 No protein-ligand interaction detected (PLIP) CA.4: 1 residues within 4Å: Chain B: E.229 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.229, B:E.229, H2O.2 CA.5: 3 residues within 4Å: Chain A: D.444, E.518 Chain B: D.230 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:D.230, A:D.444, A:E.518 CA.6: 7 residues within 4Å: Chain A: D.325, D.327, N.329, E.331, I.332, D.333, Q.336 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.325, A:D.327, A:D.327, A:E.331 CA.7: 3 residues within 4Å: Chain A: W.82, E.114, D.160 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.114, H2O.1 CA.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.11: 1 residues within 4Å: Chain B: E.364 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.364 CA.12: 3 residues within 4Å: Chain B: L.599, N.602, N.615 No protein-ligand interaction detected (PLIP) CA.13: 1 residues within 4Å: Chain A: E.229 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.229, A:E.229, H2O.4 CA.14: 3 residues within 4Å: Chain A: D.230 Chain B: D.444, E.518 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Metal complexes: A:D.230, B:D.444, B:E.518 CA.15: 7 residues within 4Å: Chain B: D.325, D.327, N.329, E.331, I.332, D.333, Q.336 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.325, B:D.327, B:D.327, B:E.331 CA.16: 3 residues within 4Å: Chain B: W.82, E.114, D.160 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.114, H2O.3

2 x PLM: PALMITIC ACID(Non-covalent)

PLM.8: 8 residues within 4Å: Chain A: M.227, S.267, S.268, W.270, V.273, F.274, L.277 Chain B: L.523 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.270, A:V.273, A:L.277, B:L.523 Hydrogen bonds: A:S.267 Water bridges: A:T.231 PLM.17: 8 residues within 4Å: Chain A: L.523 Chain B: M.227, S.267, S.268, W.270, V.273, F.274, L.277 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:W.270, B:V.273, B:L.277, A:L.523 Hydrogen bonds: B:S.267 Water bridges: B:S.267

2 x 66R: trans-Ned 19(Non-covalent)

66R.9: 3 residues within 4Å: Chain A: W.222, Y.241 Chain B: F.434 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.222, A:Y.241, B:F.434 66R.18: 3 residues within 4Å: Chain A: F.434 Chain B: W.222, Y.241 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.434, B:W.222, B:Y.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kintzer, A.F. et al., Structure, inhibition and regulation of two-pore channel TPC1 from Arabidopsis thaliana. Nature (2016)

Release Date

2016-03-09

Peptides

Two pore calcium channel protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Membrane

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