6H0K

Hen egg-white lysozyme structure determined with data from the EuXFEL, the first MHz free electron laser, 7.47 keV photon energy


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.201 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Megahertz data collection from protein microcrystals at an X-ray free-electron laser.

Grunbein, M.L.Bielecki, J.Gorel, A.Stricker, M.Bean, R.Cammarata, M.Dorner, K.Frohlich, L.Hartmann, E.Hauf, S.Hilpert, M.Kim, Y.Kloos, M.Letrun, R.Messerschmidt, M.Mills, G.Nass Kovacs, G.Ramilli, M.Roome, C.M.Sato, T.Scholz, M.Sliwa, M.Sztuk-Dambietz, J.Weik, M.Weinhausen, B.Al-Qudami, N.Boukhelef, D.Brockhauser, S.Ehsan, W.Emons, M.Esenov, S.Fangohr, H.Kaukher, A.Kluyver, T.Lederer, M.Maia, L.Manetti, M.Michelat, T.Munnich, A.Pallas, F.Palmer, G.Previtali, G.Raab, N.Silenzi, A.Szuba, J.Venkatesan, S.Wrona, K.Zhu, J.Doak, R.B.Shoeman, R.L.Foucar, L.Colletier, J.P.Mancuso, A.P.Barends, T.R.M.Stan, C.A.Schlichting, I.

(2018) Nat Commun 9: 3487-3487

  • DOI: 10.1038/s41467-018-05953-4
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • X-ray free-electron lasers (XFELs) enable novel experiments because of their high peak brilliance and femtosecond pulse duration. However, non-superconducting XFELs offer repetition rates of only 10-120 Hz, placing significant demands on beam time an ...

    X-ray free-electron lasers (XFELs) enable novel experiments because of their high peak brilliance and femtosecond pulse duration. However, non-superconducting XFELs offer repetition rates of only 10-120 Hz, placing significant demands on beam time and sample consumption. We describe serial femtosecond crystallography experiments performed at the European XFEL, the first MHz repetition rate XFEL, delivering 1.128 MHz X-ray pulse trains at 10 Hz. Given the short spacing between pulses, damage caused by shock waves launched by one XFEL pulse on sample probed by subsequent pulses is a concern. To investigate this issue, we collected data from lysozyme microcrystals, exposed to a ~15 μm XFEL beam. Under these conditions, data quality is independent of whether the first or subsequent pulses of the train were used for data collection. We also analyzed a mixture of microcrystals of jack bean proteins, from which the structure of native, magnesium-containing concanavalin A was determined.


    Organizational Affiliation

    Max Planck Institute for Medical Research, Jahnstrasse 29, 69120, Heidelberg, Germany. Ilme.Schlichting@mpimf-heidelberg.mpg.de.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lysozyme CA129Gallus gallusMutation(s): 0 
Gene Names: LYZ
EC: 3.2.1.17
Find proteins for P00698 (Gallus gallus)
Explore P00698 
Go to UniProtKB:  P00698
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.201 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.85α = 90
b = 79.85β = 90
c = 38.5γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Revision History 

  • Version 1.0: 2018-09-05
    Type: Initial release
  • Version 1.1: 2018-09-12
    Changes: Data collection, Database references
  • Version 1.2: 2018-11-14
    Changes: Data collection