Crystal structure of hen egg-white lysozyme

Experimental Data Snapshot

  • Resolution: 1.80 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.175 
  • R-Value Observed: 0.175 

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This is version 1.2 of the entry. See complete history


Hydroxyethyl cellulose matrix applied to serial crystallography

Sugahara, M.Nakane, T.Masuda, T.Suzuki, M.Inoue, S.Song, C.Tanaka, R.Nakatsu, T.Mizohata, E.Yumoto, F.Tono, K.Joti, Y.Kameshima, T.Hatsui, T.Yabashi, M.Nureki, O.Numata, K.Nango, E.Iwata, S.

(2017) Sci Rep 7: 703-703

  • DOI: https://doi.org/10.1038/s41598-017-00761-0
  • Primary Citation of Related Structures:  
    5WR8, 5WR9, 5WRA, 5WRB, 5WRC

  • PubMed Abstract: 

    Serial femtosecond crystallography (SFX) allows structures of proteins to be determined at room temperature with minimal radiation damage. A highly viscous matrix acts as a crystal carrier for serial sample loading at a low flow rate that enables the determination of the structure, while requiring consumption of less than 1 mg of the sample. However, a reliable and versatile carrier matrix for a wide variety of protein samples is still elusive. Here we introduce a hydroxyethyl cellulose-matrix carrier, to determine the structure of three proteins. The de novo structure determination of proteinase K from single-wavelength anomalous diffraction (SAD) by utilizing the anomalous signal of the praseodymium atom was demonstrated using 3,000 diffraction images.

  • Organizational Affiliation

    Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe-cho, Sakyo-ku, Kyoto, 606-8501, Japan.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lysozyme C129Gallus gallusMutation(s): 0 
Gene Names: LYZ
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
  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 80α = 90
b = 80β = 90
c = 38.4γ = 90
Software Package:
Software NamePurpose
CrystFELdata processing
CrystFELdata scaling
Cootmodel building

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-12-06
    Type: Initial release
  • Version 1.1: 2018-01-24
    Changes: Data collection
  • Version 1.2: 2023-09-06
    Changes: Data collection, Database references, Derived calculations