SMTL ID : 8iab.1

The Arabidopsis CLCa transporter bound with chloride, ATP and PIP2

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 18 residues within 4Å: Chain A: E.55, S.56, K.596, P.598, V.599, V.600, T.619, H.620, N.621, A.622, F.623, R.729, H.730, I.748, T.750, Q.752, D.753 Ligands: MG.2 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:S.56, A:S.56, A:S.56, A:K.596, A:V.600, A:V.600, A:T.619, A:H.620, A:N.621, A:N.621, A:D.753 Salt bridges: A:H.620, A:R.729, A:R.729, A:H.730 pi-Stacking: A:H.620, A:H.620 ATP.7: 18 residues within 4Å: Chain B: E.55, S.56, K.596, P.598, V.599, V.600, T.619, H.620, N.621, A.622, F.623, R.729, H.730, I.748, T.750, Q.752, D.753 Ligands: MG.8 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:S.56, B:S.56, B:S.56, B:K.596, B:V.600, B:V.600, B:T.619, B:H.620, B:N.621, B:N.621, B:D.753 Salt bridges: B:H.620, B:R.729, B:R.729, B:H.730 pi-Stacking: B:H.620, B:H.620

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.55, N.621 Ligands: ATP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.55, A:E.55 MG.8: 2 residues within 4Å: Chain B: E.55 Ligands: ATP.7 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.55

2 x PIO: [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate(Non-covalent)

PIO.3: 16 residues within 4Å: Chain A: W.71, R.72, F.80, I.83, F.84, K.86, W.87, R.276, A.278, W.281, R.282 Chain B: F.547, L.550, T.554, S.558, N.579 15 PLIP interactions: 11 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.80, A:I.83, A:F.84, A:W.87, A:W.87, B:F.547, B:L.550 Hydrogen bonds: A:K.86, B:N.579, B:N.579 Salt bridges: A:R.72, A:R.72, A:K.86, A:R.276, A:R.282 PIO.9: 16 residues within 4Å: Chain A: F.547, L.550, T.554, S.558, N.579 Chain B: W.71, R.72, F.80, I.83, F.84, K.86, W.87, R.276, A.278, W.281, R.282 15 PLIP interactions: 11 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:F.80, B:I.83, B:F.84, B:W.87, B:W.87, A:F.547, A:L.550 Hydrogen bonds: B:K.86, A:N.579, A:N.579 Salt bridges: B:R.72, B:R.72, B:K.86, B:R.276, B:R.282

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 7 residues within 4Å: Chain A: G.201, E.203, G.204, G.478, L.479, F.480, L.481 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain A: P.160, I.162, L.479, Y.564 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: P.160, G.161, P.163, E.164 Ligand excluded by PLIP CL.10: 7 residues within 4Å: Chain B: G.201, E.203, G.204, G.478, L.479, F.480, L.481 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain B: P.160, I.162, L.479, Y.564 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain B: P.160, G.161, P.163, E.164 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, Z. et al., Molecular mechanism underlying regulation of Arabidopsis CLCa transporter by nucleotides and phospholipids. Nat Commun (2023)

Release Date

2023-08-02

Peptides

Chloride channel protein CLC-a: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Chloride channel protein CLC-a

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