3E7R

X-ray Crystal Structure of Racemic Plectasin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.202 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Racemic crystallography of synthetic protein enantiomers used to determine the X-ray structure of plectasin by direct methods

Mandal, K.Pentelute, B.L.Tereshko, V.Thammavongsa, V.Schneewind, O.Kossiakoff, A.A.Kent, S.B.

(2009) Protein Sci. 18: 1146-1154

  • DOI: 10.1002/pro.127
  • Primary Citation of Related Structures:  3E7U

  • PubMed Abstract: 
  • We describe the use of racemic crystallography to determine the X-ray structure of the natural product plectasin, a potent antimicrobial protein recently isolated from fungus. The protein enantiomers L-plectasin and D-plectasin were prepared by total ...

    We describe the use of racemic crystallography to determine the X-ray structure of the natural product plectasin, a potent antimicrobial protein recently isolated from fungus. The protein enantiomers L-plectasin and D-plectasin were prepared by total chemical synthesis; interestingly, L-plectasin showed the expected antimicrobial activity, while D-plectasin was devoid of such activity. The mirror image proteins were then used for racemic crystallization. Synchrotron X-ray diffraction data were collected to atomic resolution from a racemic plectasin crystal; the racemate crystallized in the achiral centrosymmetric space group P1 with one L-plectasin molecule and one D-plectasin molecule forming the unit cell. Dimer-like intermolecular interactions between the protein enantiomers were observed, which may account for the observed extremely low solvent content (13%-15%) and more highly ordered nature of the racemic crystals. The structure of the plectasin molecule was well defined for all 40 amino acids and was generally similar to the previously determined NMR structure, suggesting minimal impact of the crystal packing on the plectasin conformation.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, The University of Chicago, Chicago, IL 60637, USA. kmandal@uchicago.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Plectasin
L
40Pseudoplectania nigrellaGene Names: DEF
Find proteins for Q53I06 (Pseudoplectania nigrella)
Go to UniProtKB:  Q53I06
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.202 
  • Space Group: P -1
Unit Cell:
Length (Å)Angle (°)
a = 23.581α = 109.65
b = 23.812β = 94.95
c = 24.492γ = 97.69
Software Package:
Software NamePurpose
REFMACrefinement
SHELXSphasing
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-06-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-03-28
    Type: Other