1JA6

BINDING OF N-ACETYLGLUCOSAMINE TO CHICKEN EGG LYSOZYME: A POWDER DIFFRACTION STUDY


Experimental Data Snapshot

    wwPDB Validation   3D Report Full Report


    This is version 1.3 of the entry. See complete history


    Literature

    Binding of N-acetylglucosamine to chicken egg lysozyme: a powder diffraction study.

    Von Dreele, R.B.

    (2001) Acta Crystallogr D Biol Crystallogr 57: 1836-1842

    • DOI: https://doi.org/10.1107/s0907444901015748
    • Primary Citation of Related Structures:  
      1JA2, 1JA4, 1JA6, 1JA7

    • PubMed Abstract: 

      The binding of N-acetylglucosamine (NAG) to chicken egg lysozyme (E.C. 3.2.1.17) was investigated by high-resolution X-ray powder diffraction at room temperature. NAG was found to bind to lysozyme in a rapid precipitation preparation with 0.05 M NaCl buffer pH 6.0, but not 0.05 M NaCl buffer pH 5.0. Binding was indicated by significant and readily apparent changes in the diffraction pattern from that of the apo protein precipitated from the same solvent. The location of NAG bound to lysozyme was easily found from a difference Fourier map generated from structure factors extracted during a preliminary combined Rietveld and stereochemical restraint refinement. Full protein and protein-NAG structures were refined with these techniques (R(wp) = 2.22-2.49%, R(p) = 1.79-1.95%, R(F)(2) = 4.95-6.35%) and revealed a binding mode for NAG which differed from that found in an earlier single-crystal study and probably represents a precursor trapped by rapid precipitation.


    • Organizational Affiliation

      Manuel Lujan Jr Neutron Scattering Center, MS H805, Los Alamos National Laboratory, Los Alamos, NM 87545, USA. vondreele@lanl.gov


    Macromolecules
    Find similar proteins by:  (by identity cutoff)  |  3D Structure
    Entity ID: 1
    MoleculeChains Sequence LengthOrganismDetailsImage
    LYSOZYME129Gallus 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 = 79.132α = 90
    b = 79.132β = 90
    c = 38.03γ = 90
    Software Package:
    Software NamePurpose
    PROCESSdata reduction
    GSASrefinement
    PROCESSdata scaling

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2001-06-15
      Type: Initial release
    • Version 1.1: 2008-04-27
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance
    • Version 1.3: 2023-08-16
      Changes: Data collection, Database references, Refinement description