2C3E | pdb_00002c3e

The bovine mitochondrial ADP-ATP carrier

• PDB DOI: https://doi.org/10.2210/pdb2C3E/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Bos taurus
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2005-10-06 Released: 2005-10-20 
• Deposition Author(s): Nury, H., Dahout-Gonzalez, C., Trezeguet, V., Lauquin, G., Brandolin, G., Pebay-Peyroula, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.281 (Depositor), 0.287 (DCC) 
• R-Value Work: 
  0.250 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.250 (Depositor) 

Starting Model: experimental

Literature

Structural Basis for Lipid-Mediated Interactions between Mitochondrial Adp/ATP Carrier Monomers.

Nury, H., Dahout-Gonzalez, C., Trezeguet, V., Lauquin, G., Brandolin, G., Pebay-Peyroula, E.

(2005) FEBS Lett 579: 6031

• PubMed: 16226253 
• DOI: https://doi.org/10.1016/j.febslet.2005.09.061
• Primary Citation Related Structures: 
  2C3E


• PubMed Abstract: 
  

  The oligomerization state of the ADP/ATP carrier is an important issue in understanding the mechanism underlying nucleotide exchange across the inner mitochondrial membrane. The first high resolution structure obtained in the presence of carboxyatractyloside revealed a large cavity formed within a monomer in which the inhibitor is strongly bound. Whereas the protein-protein interactions implicated in the first crystal form are not biologically relevant, the new crystal form described herein, highlights favorable protein-protein interactions. The interactions are mediated by endogenous cardiolipins, which are tightly bound to the protein, two cardiolipins being sandwiched between the monomers on the matrix side. The putative dimerization interface evidenced here is consistent with other structural, biochemical or functional data published so far.

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Organizational Affiliation: 
• Institut de Biologie Structurale, UMR 5075 CEA-CNRS-Université Joseph Fourier, F-38027 Grenoble Cedex 1, France.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 38.04 kDa 
• Atom Count: 2,515 
• Modeled Residue Count: 293 
• Deposited Residue Count: 297 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADP/ATP TRANSLOCASE 1	A	297	Bos taurus	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for P02722 (Bos taurus) Explore P02722  Go to UniProtKB:  P02722

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CDL	C [auth A], D [auth A], E [auth A]	CARDIOLIPIN C81 H156 O17 P2 XVTUQDWPJJBEHJ-KZCWQMDCSA-L
CXT	B [auth A]	Carboxyatractyloside C31 H46 O18 S2 AQFATIOBERWBDY-LNQSNDDKSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.281 (Depositor), 0.287 (DCC) 
• R-Value Work:  0.250 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.250 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.246	α = 90
b = 110.752	β = 90
c = 89.54	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-10-20 
Deposition Author(s): Nury, H., Dahout-Gonzalez, C., Trezeguet, V., Lauquin, G., Brandolin, G., Pebay-Peyroula, E.

Revision History  

• Version 1.0: 2005-10-20
  Type: Initial release
  
• Version 1.1: 2014-01-29
  Changes: Advisory, Atomic model, Derived calculations, Non-polymer description, Other, Refinement description, Source and taxonomy, Structure summary, Version format compliance
• Version 1.2: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description