X-ray structure of CO-bound sperm whale myoglobin using a fixed target crystallography chip

Experimental Data Snapshot

  • Resolution: 1.90 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 

wwPDB Validation   3D Report Full Report

This is version 1.6 of the entry. See complete history


Fixed target combined with spectral mapping: approaching 100% hit rates for serial crystallography.

Oghbaey, S.Sarracini, A.Ginn, H.M.Pare-Labrosse, O.Kuo, A.Marx, A.Epp, S.W.Sherrell, D.A.Eger, B.T.Zhong, Y.Loch, R.Mariani, V.Alonso-Mori, R.Nelson, S.Lemke, H.T.Owen, R.L.Pearson, A.R.Stuart, D.I.Ernst, O.P.Mueller-Werkmeister, H.M.Miller, R.J.

(2016) Acta Crystallogr D Struct Biol 72: 944-955

  • DOI: https://doi.org/10.1107/S2059798316010834
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The advent of ultrafast highly brilliant coherent X-ray free-electron laser sources has driven the development of novel structure-determination approaches for proteins, and promises visualization of protein dynamics on sub-picosecond timescales with full atomic resolution. Significant efforts are being applied to the development of sample-delivery systems that allow these unique sources to be most efficiently exploited for high-throughput serial femtosecond crystallography. Here, the next iteration of a fixed-target crystallography chip designed for rapid and reliable delivery of up to 11 259 protein crystals with high spatial precision is presented. An experimental scheme for predetermining the positions of crystals in the chip by means of in situ spectroscopy using a fiducial system for rapid, precise alignment and registration of the crystal positions is presented. This delivers unprecedented performance in serial crystallography experiments at room temperature under atmospheric pressure, giving a raw hit rate approaching 100% with an effective indexing rate of approximately 50%, increasing the efficiency of beam usage and allowing the method to be applied to systems where the number of crystals is limited.

  • Organizational Affiliation

    Department of Physics and Chemistry, University of Toronto, 60 St George Street, Toronto, ON M5S 1A7, Canada.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Myoglobin154Physeter catodonMutation(s): 0 
Gene Names: MB
Find proteins for P02185 (Physeter macrocephalus)
Explore P02185 
Go to UniProtKB:  P02185
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02185
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.90 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.13α = 90
b = 46.483β = 90
c = 84.521γ = 90
Software Package:
Software NamePurpose
Cheetahdata collection
DIALSdata scaling
CPPXFELdata processing
CPPXFELdata reduction
CPPXFELdata scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)Canada--
Max Planck SocietyGermany--
Canadian Institute for Advanced ResearchCanada--
Canada Excellence Research Chair ProgramCanada--
Anne and Max Tanenbaum Chair in Neuroscience at the University of TorontoCanada--
People Programme (Marie Curie Actions) of the European Union's Seventh Framework Programme (FP7/2007-2013)GermanyREA grant agreement no. 623994
Department of Energy (DOE, United States)United StatesContract No. DE-AC02-76SF00515

Revision History  (Full details and data files)

  • Version 1.0: 2016-08-17
    Type: Initial release
  • Version 1.1: 2017-09-13
    Changes: Author supporting evidence, Derived calculations
  • Version 1.2: 2017-11-22
    Changes: Refinement description
  • Version 1.3: 2018-02-14
    Changes: Data collection
  • Version 1.4: 2018-04-18
    Changes: Data collection
  • Version 1.5: 2019-12-04
    Changes: Author supporting evidence
  • Version 1.6: 2023-09-27
    Changes: Data collection, Database references, Refinement description