Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 36.41 kDa 
• Atom Count: 2707 
• Residue Count: 318 
• Unique protein chains: 1

2IE7

Annexin V under 2.0 MPa pressure of nitrous oxide

• DOI: 10.2210/pdb2IE7/pdb

• Classification: PROTEIN AND METAL BINDING PROTEIN
• Organism(s): Rattus norvegicus
• Mutation(s): No 


• Deposited: 2006-09-18 Released: 2007-02-06 
• Deposition Author(s): Colloc'h, N., Sopkova-de Oliveira Santos, J., Prange, T., Brisson, A., Langlois d'Estainto, B., Gallois, B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.203 
• R-Value Work: 0.174 
• R-Value Observed: 0.175 

Literature

Protein Crystallography under Xenon and Nitrous Oxide Pressure: Comparison with In Vivo Pharmacology Studies and Implications for the Mechanism of Inhaled Anesthetic Action

Colloc'h, N., Sopkova-de Oliveira Santos, J., Retailleau, P., Langlois d'Estainto, B., Gallois, B., Brisson, A., Risso, J.J., Lemaire, M., Abraini, J.H.

(2007) Biophys J 92: 217-224

• PubMed: 17028130 
• DOI: 10.1529/biophysj.106.093807
• Structures With Same Primary Citation


• PubMed Abstract: 
  

In contrast with most inhalational anesthetics, the anesthetic gases xenon (Xe) and nitrous oxide (N(2)O) act by blocking the N-methyl-d-aspartate (NMDA) receptor. Using x-ray crystallography, we examined the binding characteristics of these two gases on two soluble proteins as structural models: urate oxidase, which is a prototype of a variety of intracellular globular proteins, and annexin V, which has structural and functional characteristics that allow it to be considered as a prototype for the NMDA receptor. The structure of these proteins complexed with Xe and N(2)O were determined. One N(2)O molecule or one Xe atom binds to the same main site in both proteins. A second subsite is observed for N(2)O in each case. The gas-binding sites are always hydrophobic flexible cavities buried within the monomer. Comparison of the effects of Xe and N(2)O on urate oxidase and annexin V reveals an interesting relationship with the in vivo pharmacological effects of these gases, the ratio of the gas-binding sites' volume expansion and the ratio of the narcotic potency being similar. Given these data, we propose that alterations of cytosolic globular protein functions by general anesthetics would be responsible for the early stages of anesthesia such as amnesia and hypnosis and that additional alterations of ion-channel membrane receptor functions are required for deeper effects that progress to "surgical" anesthesia.

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Organizational Affiliation: 

Centre CYCERON, UMR 6185, Université de Caen--CNRS, 14074 Caen cedex, France.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Annexin A5	A	318	Rattus norvegicus	Mutation(s): 0  Gene Names: Anxa5, Anx5
Find proteins for P14668 (Rattus norvegicus) Explore P14668  Go to UniProtKB:  P14668

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
N2O	A	NITROUS OXIDE N2 O GQPLMRYTRLFLPF-UHFFFAOYSA-N
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.203 
• R-Value Work: 0.174 
• R-Value Observed: 0.175 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 157.028	α = 90
b = 157.028	β = 90
c = 37.327	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-09-18 
• Released Date: 2007-02-06 
Deposition Author(s): Colloc'h, N., Sopkova-de Oliveira Santos, J., Prange, T., Brisson, A., Langlois d'Estainto, B., Gallois, B.

Revision History 

• Version 1.0: 2007-02-06
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description