SMTL ID : 4c69.1

ATP binding to murine voltage-dependent anion channel 1 (mVDAC1).

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

monomer

Ligands

6 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)(Non-functional Binders)

LDA.1: 1 residues within 4Å: Chain A: Y.158 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.158, A:Y.158, A:Y.158 LDA.3: 2 residues within 4Å: Chain A: F.190, Q.208 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.190, A:F.190, A:F.190 LDA.6: 3 residues within 4Å: Chain A: W.161 Ligands: LDA.8, LDA.9 No protein-ligand interaction detected (PLIP) LDA.7: 1 residues within 4Å: Ligands: LDA.9 No protein-ligand interaction detected (PLIP) LDA.8: 2 residues within 4Å: Ligands: MC3.2, LDA.6 No protein-ligand interaction detected (PLIP) LDA.9: 2 residues within 4Å: Ligands: LDA.6, LDA.7 No protein-ligand interaction detected (PLIP)

2 x MC3: 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

MC3.2: 4 residues within 4Å: Chain A: W.161, Y.185, F.190 Ligands: LDA.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.161, A:Y.185 MC3.5: 6 residues within 4Å: Chain A: L.192, T.194, F.202, I.206, L.220, W.222 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.192, A:T.194, A:I.206, A:L.220, A:W.222 Hydrogen bonds: A:W.222

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

ATP.4: 2 residues within 4Å: Chain A: K.24, K.32 5 PLIP interactions: 5 interactions with chain A Water bridges: A:E.292 Salt bridges: A:K.24, A:K.24, A:K.32 pi-Cation interactions: A:K.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choudhary, O.P. et al., Structure-Guided Simulations Illuminate the Mechanism of ATP Transport Through Vdac1. Nat.Struct.Mol.Biol. (2014)

Release Date

2014-06-04

Peptides

VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

Membrane

We predict this structure to be a membrane protein.
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VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 1

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