8P1C

Lysozyme structure solved from serial crystallography data collected at 1 kHz with JUNGFRAU detector at MAXIV


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.58 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.163 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Kilohertz serial crystallography with the JUNGFRAU detector at a fourth-generation synchrotron source.

Leonarski, F.Nan, J.Matej, Z.Bertrand, Q.Furrer, A.Gorgisyan, I.Bjelcic, M.Kepa, M.Glover, H.Hinger, V.Eriksson, T.Cehovin, A.Eguiraun, M.Gasparotto, P.Mozzanica, A.Weinert, T.Gonzalez, A.Standfuss, J.Wang, M.Ursby, T.Dworkowski, F.

(2023) IUCrJ 10: 729-737

  • DOI: https://doi.org/10.1107/S2052252523008618
  • Primary Citation of Related Structures:  
    8P1A, 8P1B, 8P1C, 8P1D

  • PubMed Abstract: 

    Serial and time-resolved macromolecular crystallography are on the rise. However, beam time at X-ray free-electron lasers is limited and most third-generation synchrotron-based macromolecular crystallography beamlines do not offer the necessary infrastructure yet. Here, a new setup is demonstrated, based on the JUNGFRAU detector and Jungfraujoch data-acquisition system, that enables collection of kilohertz serial crystallography data at fourth-generation synchrotrons. More importantly, it is shown that this setup is capable of collecting multiple-time-point time-resolved protein dynamics at kilohertz rates, allowing the probing of microsecond to second dynamics at synchrotrons in a fraction of the time needed previously. A high-quality complete X-ray dataset was obtained within 1 min from lysozyme microcrystals, and the dynamics of the light-driven sodium-pump membrane protein KR2 with a time resolution of 1 ms could be demonstrated. To make the setup more accessible for researchers, downstream data handling and analysis will be automated to allow on-the-fly spot finding and indexing, as well as data processing.


  • Organizational Affiliation

    Photon Science Division, Paul Scherrer Institut, CH-5303 Villigen PSI, Switzerland.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lysozyme C129Gallus gallusMutation(s): 0 
EC: 3.2.1.17
UniProt
Find proteins for P00698 (Gallus gallus)
Explore P00698 
Go to UniProtKB:  P00698
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00698
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.06α = 90
b = 79.06β = 90
c = 38.27γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-18
    Type: Initial release
  • Version 1.1: 2023-10-25
    Changes: Database references
  • Version 1.2: 2023-11-15
    Changes: Database references
  • Version 1.3: 2024-11-20
    Changes: Structure summary