6QY4

Pink beam serial crystallography: Lysozyme, 1 us exposure, 14793 patterns merged

  • Classification: HYDROLASE
  • Organism(s): Gallus gallus
  • Mutation(s): No 

  • Deposited: 2019-03-08 Released: 2019-09-25 
  • Deposition Author(s): Lieske, J., Tolstikova, A., Meents, A.
  • Funding Organization(s): European Commission, German Federal Ministry for Education and Research, European Union, European Research Council

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.183 
  • R-Value Work: 0.156 
  • R-Value Observed: 0.159 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

1 kHz fixed-target serial crystallography using a multilayer monochromator and an integrating pixel detector.

Tolstikova, A.Levantino, M.Yefanov, O.Hennicke, V.Fischer, P.Meyer, J.Mozzanica, A.Redford, S.Crosas, E.Opara, N.L.Barthelmess, M.Lieske, J.Oberthuer, D.Wator, E.Mohacsi, I.Wulff, M.Schmitt, B.Chapman, H.N.Meents, A.

(2019) IUCrJ 6: 927-937

  • DOI: https://doi.org/10.1107/S205225251900914X
  • Primary Citation of Related Structures:  
    6QXV, 6QXW, 6QXX, 6QXY, 6QY0, 6QY1, 6QY2, 6QY4, 6QY5

  • PubMed Abstract: 

    Reliable sample delivery and efficient use of limited beam time have remained bottlenecks for serial crystallography (SX). Using a high-intensity polychromatic X-ray beam in combination with a newly developed charge-integrating JUNGFRAU detector, we have applied the method of fixed-target SX to collect data at a rate of 1 kHz at a synchrotron-radiation facility. According to our data analysis for the given experimental conditions, only about 3 000 diffraction patterns are required for a high-quality diffraction dataset. With indexing rates of up to 25%, recording of such a dataset takes less than 30 s.


  • Organizational Affiliation

    Center for Free Electron Laser Science, DESY, Notkestrasse 85, 22607 Hamburg, Germany.


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

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.183 
  • R-Value Work: 0.156 
  • R-Value Observed: 0.159 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.86α = 90
b = 79.86β = 90
c = 38.02γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing
Cootmodel building

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Commission637295
German Federal Ministry for Education and ResearchGermany031B0405D
European Union654220
European Research Council609920
German Federal Ministry for Education and ResearchGermany05K2018-201-06727 MXD

Revision History  (Full details and data files)

  • Version 1.0: 2019-09-25
    Type: Initial release
  • Version 1.1: 2019-10-09
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Refinement description