6MUZ

Lysozyme, room temperature structure solved by serial 3 degree oscillation crystallography


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.839 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.170 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Fixed-target serial oscillation crystallography at room temperature.

Wierman, J.L.Pare-Labrosse, O.Sarracini, A.Besaw, J.E.Cook, M.J.Oghbaey, S.Daoud, H.Mehrabi, P.Kriksunov, I.Kuo, A.Schuller, D.J.Smith, S.Ernst, O.P.Szebenyi, D.M.E.Gruner, S.M.Miller, R.J.D.Finke, A.D.

(2019) IUCrJ 6: 305-316

  • DOI: 10.1107/S2052252519001453
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A fixed-target approach to high-throughput room-temperature serial synchrotron crystallography with oscillation is described. Patterned silicon chips with microwells provide high crystal-loading density with an extremely high hit rate. The microfocus ...

    A fixed-target approach to high-throughput room-temperature serial synchrotron crystallography with oscillation is described. Patterned silicon chips with microwells provide high crystal-loading density with an extremely high hit rate. The microfocus, undulator-fed beamline at CHESS, which has compound refractive optics and a fast-framing detector, was built and optimized for this experiment. The high-throughput oscillation method described here collects 1-5° of data per crystal at room temperature with fast (10° s -1 ) oscillation rates and translation times, giving a crystal-data collection rate of 2.5 Hz. Partial datasets collected by the oscillation method at a storage-ring source provide more complete data per crystal than still images, dramatically lowering the total number of crystals needed for a complete dataset suitable for structure solution and refinement - up to two orders of magnitude fewer being required. Thus, this method is particularly well suited to instances where crystal quantities are low. It is demonstrated, through comparison of first and last oscillation images of two systems, that dose and the effects of radiation damage can be minimized through fast rotation and low angular sweeps for each crystal.


    Organizational Affiliation

    Kavli Institute for Nanoscale Science, Cornell University, Ithaca, NY 14853, USA.,Departments of Biochemistry and Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.,MacCHESS, Cornell University, Ithaca, NY 14853, USA.,Max Planck Institute for the Structure and Dynamics of Matter, Hamburg, Germany.,Departments of Chemistry and Physics, University of Toronto, Toronto, ON Canada.,Department of Physics, Cornell University, Ithaca, NY 14853, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lysozyme C
A
129Gallus gallusMutation(s): 0 
Gene Names: LYZ
EC: 3.2.1.17
Find proteins for P00698 (Gallus gallus)
Go to Gene View: LYZ
Go to UniProtKB:  P00698
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.839 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.170 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 79.100α = 90.00
b = 79.100β = 90.00
c = 38.020γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PHENIXrefinement
XDSdata reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM-103485
National Science Foundation (United States)United StatesDMR-1332208

Revision History 

  • Version 1.0: 2019-03-27
    Type: Initial release