2JK4 | pdb_00002jk4

Structure of the human voltage-dependent anion channel


Experimental Data Snapshot

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp4.10 Å
  • R-Value Free:&nbsp
    0.387 (Depositor), 0.430 (DCC)&nbsp
  • R-Value Work:&nbsp
    0.325 (Depositor), 0.360 (DCC)&nbsp
  • R-Value Observed:&nbsp
    0.331&nbsp(Depositor)&nbsp

wwPDB Validation&nbsp &nbsp3D Report&nbspFull Report


This is version 1.3 of the entry. See complete&nbsphistory.&nbsp


Literature

Structure of the Human Voltage-Dependent Anion Channel.

Bayrhuber, M.,&nbspMeins, T.,&nbspHabeck, M.,&nbspBecker, S.,&nbspGiller, K.,&nbspVillinger, S.,&nbspVonrhein, C.,&nbspGriesinger, C.,&nbspZweckstetter, M.,&nbspZeth, K.

(2008) Proc Natl Acad Sci U S A&nbsp105: 15370

  • DOI:&nbsphttps://doi.org/10.1073/pnas.0808115105
  • Primary Citation of Related Structures: &nbsp
    2JK4

  • PubMed Abstract:&nbsp

    The voltage-dependent anion channel (VDAC), also known as mitochondrial porin, is the most abundant protein in the mitochondrial outer membrane (MOM). VDAC is the channel known to guide the metabolic flux across the MOM and plays a key role in mitochondrially induced apoptosis. Here, we present the 3D structure of human VDAC1, which was solved conjointly by NMR spectroscopy and x-ray crystallography. Human VDAC1 (hVDAC1) adopts a beta-barrel architecture composed of 19 beta-strands with an alpha-helix located horizontally midway within the pore. Bioinformatic analysis indicates that this channel architecture is common to all VDAC proteins and is adopted by the general import pore TOM40 of mammals, which is also located in the MOM.


  • Organizational Affiliation:&nbsp

    Department of NMR-Based Structural Biology, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 1294Homo sapiensMutation(s): 0&nbsp
Membrane Entity:&nbspYes&nbsp
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspP21796&nbsp(Homo sapiens)
Explore&nbspP21796&nbsp
Go to UniProtKB: &nbspP21796
PHAROS: &nbspP21796
GTEx: &nbspENSG00000213585&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP21796
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp4.10 Å
  • R-Value Free:&nbsp 0.387 (Depositor), 0.430 (DCC)&nbsp
  • R-Value Work:&nbsp 0.325 (Depositor), 0.360 (DCC)&nbsp
  • R-Value Observed:&nbsp0.331&nbsp(Depositor)&nbsp
Space Group:&nbspP 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.99α = 90
b = 77.99β = 90
c = 167.04γ = 120
Software Package:
Software NamePurpose
BUSTER-TNTrefinement
XDSdata reduction
SCALAdata scaling
SHELXDphasing

Structure Validation

View&nbspFull Validation Report



Entry History&nbsp

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-10-14
    Type: Initial release
  • Version 1.1: 2011-05-07
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-05-08
    Changes: Data collection, Database references, Other