2GYD

Complex of equine apoferritin with the H-diaziflurane photolabeling reagent


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.207 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Photoactive analogues of the haloether anesthetics provide high-resolution features from low-affinity interactions.

Xi, J.Liu, R.Rossi, M.J.Yang, J.Loll, P.J.Dailey, W.P.Eckenhoff, R.G.

(2006) Acs Chem.Biol. 1: 377-384

  • DOI: 10.1021/cb600207d

  • PubMed Abstract: 
  • The difficulty in obtaining binding target and site information for low-affinity drugs, like the inhaled anesthetics, has limited identification of their molecular effectors. Because such information can be provided by photoactive analogues, we desig ...

    The difficulty in obtaining binding target and site information for low-affinity drugs, like the inhaled anesthetics, has limited identification of their molecular effectors. Because such information can be provided by photoactive analogues, we designed, synthesized, and characterized a novel diazirnyl haloether that closely mimics isoflurane, the most widely used clinical general anesthetic. This compound, H-diaziflurane, is a nontoxic, potent anesthetic that potentiates GABA-gated ion channels in primary cultures of hippocampal neurons. Calorimetric and structural characterizations show that H-diaziflurane binds a model anesthetic host protein with similar energetics as isoflurane and forms photoadducts with residues lining the isoflurane binding site. H-diaziflurane will be immediately useful for identifying targets and sites important for the molecular pharmacology of the inhaled haloether anesthetics.


    Organizational Affiliation

    Department of Anesthesiology & Critical Care, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ferritin L subunit
A
170Equus caballusMutation(s): 0 
Gene Names: FTL
Find proteins for P02791 (Equus caballus)
Go to Gene View: FTL
Go to UniProtKB:  P02791
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DFE
Query on DFE

Download SDF File 
Download CCD File 
A
2-(1,1-DIFLUOROETHOXY)-1,1,1-TRIFLUOROETHANE
C4 H5 F5 O
LUGFHDZVRRASHY-UHFFFAOYSA-N
 Ligand Interaction
CD
Query on CD

Download SDF File 
Download CCD File 
A
CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.207 
  • Space Group: F 4 3 2
Unit Cell:
Length (Å)Angle (°)
a = 181.890α = 90.00
b = 181.890β = 90.00
c = 181.890γ = 90.00
Software Package:
Software NamePurpose
XTALVIEWrefinement
REFMACrefinement
PDB_EXTRACTdata extraction
d*TREKdata scaling
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-06-13
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance