1EJG

CRAMBIN AT ULTRA-HIGH RESOLUTION: VALENCE ELECTRON DENSITY.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.54 Å
  • R-Value Free: 0.094 
  • R-Value Work: 0.090 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Accurate protein crystallography at ultra-high resolution: valence electron distribution in crambin.

Jelsch, C.Teeter, M.M.Lamzin, V.Pichon-Pesme, V.Blessing, R.H.Lecomte, C.

(2000) Proc.Natl.Acad.Sci.USA 97: 3171-3176

  • Also Cited By: 3NIR

  • PubMed Abstract: 
  • The charge density distribution of a protein has been refined experimentally. Diffraction data for a crambin crystal were measured to ultra-high resolution (0.54 A) at low temperature by using short-wavelength synchrotron radiation. The crystal struc ...

    The charge density distribution of a protein has been refined experimentally. Diffraction data for a crambin crystal were measured to ultra-high resolution (0.54 A) at low temperature by using short-wavelength synchrotron radiation. The crystal structure was refined with a model for charged, nonspherical, multipolar atoms to accurately describe the molecular electron density distribution. The refined parameters agree within 25% with our transferable electron density library derived from accurate single crystal diffraction analyses of several amino acids and small peptides. The resulting electron density maps of redistributed valence electrons (deformation maps) compare quantitatively well with a high-level quantum mechanical calculation performed on a monopeptide. This study provides validation for experimentally derived parameters and a window into charge density analysis of biological macromolecules.


    Organizational Affiliation

    Laboratoire de Cristallographie et Modélisation des Matériaux Minéraux et Biologiques, Université Henri Poincaré-Nancy 1-Centre National de la Recherche Scientifique ESA 7036, BP 239, 54506 Vandoeuvre-lès-Nancy, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRAMBIN (PRO22,SER22/LEU25,ILE25)
A
46Crambe hispanica subsp. abyssinicaGene Names: THI2
Find proteins for P01542 (Crambe hispanica subsp. abyssinica)
Go to UniProtKB:  P01542
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.54 Å
  • R-Value Free: 0.094 
  • R-Value Work: 0.090 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 40.824α = 90.00
b = 18.498β = 90.47
c = 22.371γ = 90.00
Software Package:
Software NamePurpose
DREARdata reduction
MOLLYrefinement
DREARdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-04-05
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Atomic model, Version format compliance
  • Version 1.3: 2014-02-05
    Type: Other
  • Version 1.4: 2017-10-04
    Type: Refinement description