6TIQ

Refined solution NMR structure of hVDAC-1 in detergent micelles


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 1000 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Structural Basis for Low Conductance in the Membrane Protein VDAC upon beta-NADH Binding and Voltage Gating.

Bohm, R.Amodeo, G.F.Murlidaran, S.Chavali, S.Wagner, G.Winterhalter, M.Brannigan, G.Hiller, S.

(2020) Structure 28: 206-214.e4

  • DOI: 10.1016/j.str.2019.11.015
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The voltage-dependent anion channel (VDAC) forms the primary diffusion pore of the outer mitochondrial membrane. In its apo form, VDAC adopts an open conformation with high conductance. States of lower conductance can be induced by ligand binding or ...

    The voltage-dependent anion channel (VDAC) forms the primary diffusion pore of the outer mitochondrial membrane. In its apo form, VDAC adopts an open conformation with high conductance. States of lower conductance can be induced by ligand binding or the application of voltage. Here, we clarify at the atomic level how β-NADH binding leads to a low-conductance state and characterize the role of the VDAC N-terminal helix in voltage gating. A high-resolution NMR structure of human VDAC-1 with bound NADH, combined with molecular dynamics simulation show that β-NADH binding reduces the pore conductance sterically without triggering a structural change. Electrophysiology recordings of crosslinked protein variants and NMR relaxation experiments probing different time scales show that increased helix dynamics is present in the open state and that motions of the N-terminal helices are involved in the VDAC voltage gating mechanism.


    Organizational Affiliation

    Center for Computational Biology, Rutgers University, Camden, NJ 08102, USA.,Biozentrum, University of Basel, Basel 4056, Switzerland. Electronic address: sebastian.hiller@unibas.ch.,Life Science and Health, Jacobs University Bremen, Bremen 28759, Germany.,Center for Computational Biology, Rutgers University, Camden, NJ 08102, USA; Department of Physics, Center for Computational and Integrative Biology, Rutgers University, Camden, NJ 08201, USA.,Biozentrum, University of Basel, Basel 4056, Switzerland.,Department of Biology, Rutgers University, Camden, NJ 08201, USA.,Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Voltage-dependent anion-selective channel protein 1
A
291Homo sapiensMutation(s): 0 
Gene Names: VDAC1 (VDAC)
Find proteins for P21796 (Homo sapiens)
Go to Gene View: VDAC1
Go to UniProtKB:  P21796
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 1000 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research CouncilSwitzerland281764

Revision History 

  • Version 1.0: 2019-12-04
    Type: Initial release
  • Version 1.1: 2020-01-01
    Type: Database references
  • Version 1.2: 2020-02-12
    Type: Database references