4O4T

MURINE NEUROGLOBIN UNDER XENON PRESSURE 30 bar


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.173 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Crystallographic Studies with Xenon and Nitrous Oxide Provide Evidence for Protein-dependent Processes in the Mechanisms of General Anesthesia

Abraini, J.H.Marassio, G.David, H.N.Vallone, B.Prange, T.Colloc'h, N.

(2014) Anesthesiology 121: 1018-1027

  • DOI: https://doi.org/10.1097/ALN.0000000000000435
  • Primary Citation of Related Structures:  
    4NWE, 4NWH, 4NXA, 4NXC, 4O4T, 4O4Z

  • PubMed Abstract: 

    The mechanisms by which general anesthetics, including xenon and nitrous oxide, act are only beginning to be discovered. However, structural approaches revealed weak but specific protein-gas interactions.


  • Organizational Affiliation

    From the Faculté de Médecine, Université de Caen Basse Normandie, Normandie-Université, Caen, France (J.H.A., G.M.); Institut de Recherche Biomédicale des Armées, Brétigny-sur-Orge, France (J.H.A.); Département d'Anesthésiologie, Université Laval, Quebec City, Québec, Canada (J.H.A., H.N.D.); Centre de Recherche Hôtel-Dieu de Lévis, CSSS Alphonse-Desjardins, Lévis, Québec, Canada (H.N.D.); Department of Biochemical Sciences, University of Rome La Sapienza, Rome, Italy (B.V.); LCRB UMR 8015, Université Paris Descartes-CNRS, Faculté de Pharmacie, Paris, France (T.P.); ISTCT UMR 6301, CNRS, CERVOxy group, GIP Cyceron, Caen, France (N.C.); ISTCT UMR 6301, Université de Caen Basse Normandie, Normandie-Université, Caen, France (N.C.); and ISTCT UMR 6301, CEA DSV/I2BM, Caen, France (N.C.).


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Neuroglobin154Mus musculusMutation(s): 2 
Gene Names: Ngb
UniProt
Find proteins for Q9ER97 (Mus musculus)
Explore Q9ER97 
Go to UniProtKB:  Q9ER97
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9ER97
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download Ideal Coordinates CCD File 
B [auth A]PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
XE
Query on XE

Download Ideal Coordinates CCD File 
D [auth A]
E [auth A]
F [auth A]
G [auth A]
H [auth A]
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
J [auth A]
XENON
Xe
FHNFHKCVQCLJFQ-UHFFFAOYSA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
C [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.173 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.118α = 90
b = 89.118β = 90
c = 114.883γ = 120
Software Package:
Software NamePurpose
MxCuBEdata collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-24
    Type: Initial release
  • Version 1.1: 2014-12-17
    Changes: Database references
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Derived calculations, Refinement description