ISDA

Deposition Date 2024-09-03

Release Date 2025-01-08

Last Version Date 2025-01-22

Entry Detail

PDB ID:

9GNG

Keywords:

MEMBRANE PROTEIN

Title:

mouse VDAC1 in complex with MPD

Biological Source:

Source Organism:

Mus musculus (Taxon ID: 10090)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.40 Å

R-Value Free:

0.29

R-Value Work:

0.24

R-Value Observed:

0.24

Space Group:

C 1 2 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Isoform Mt-VDAC1 of Non-selective voltage-gated ion channel VDAC1
Gene (Uniprot):Vdac1
Chain IDs:A (auth: X)
Chain Length:295
Number of Molecules:1
Biological Source:Mus musculus

UniProt ID:Q60932 Pfam ID:PF01459

Ligand Molecules

MPD

PX4

Primary Citation

Protocol for high-yield bacterial expression and purification of the voltage-dependent anion channel 1 for high-throughput biophysical assays.

Conti Nibali, S, Magri, A, Messina, A, Wagner, A, Duman, R, De Pinto, V, Turato, C, Arrigoni, C, Lolicato, M.Show

STAR Protoc 6 103557 103557 (2025)

PMID: 39799574 DOI: 10.1016/j.xpro.2024.103557

Abstact

Voltage-dependent anion channel 1 (VDAC1) is a key protein in cellular metabolism and apoptosis. Here, we present a protocol to express and purify milligram amounts of recombinant VDAC1 in Escherichia coli. We detail steps for a fluorescence polarization-based high-throughput screening assay using NADH displacement, along with procedures for thermostability, fluorescence polarization, and X-ray crystallography. In this context, we demonstrate how 2-methyl-2,4-pentanediol (MPD), a crystallization reagent, interferes with VDAC1 small-molecule binding, hindering the detection of these ligands in the crystal. For complete details on the use and execution of this protocol, please refer to Conti Nibali et al.1.

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Primary Citation of related structures