1Y2U

Crystal structure of the common edible mushroom (Agaricus bisporus) lectin in complex with Lacto-N-biose


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

The Antineoplastic Lectin of the Common Edible Mushroom (Agaricus bisporus) Has Two Binding Sites, Each Specific for a Different Configuration at a Single Epimeric Hydroxyl

Carrizo, M.E.Capaldi, S.Perduca, M.Irazoqui, F.J.Nores, G.A.Monaco, H.L.

(2005) J Biol Chem 280: 10614-10623

  • DOI: 10.1074/jbc.M411989200
  • Primary Citation of Related Structures:  
    1Y2X, 1Y2W, 1Y2V, 1Y2U, 1Y2T

  • PubMed Abstract: 
  • The lectin from the common mushroom Agaricus bisporus, the most popular edible species in Western countries, has potent antiproliferative effects on human epithelial cancer cells, without any apparent cytotoxicity. This property confers to it an important therapeutic potential as an antineoplastic agent ...

    The lectin from the common mushroom Agaricus bisporus, the most popular edible species in Western countries, has potent antiproliferative effects on human epithelial cancer cells, without any apparent cytotoxicity. This property confers to it an important therapeutic potential as an antineoplastic agent. The three-dimensional structure of the lectin was determined by x-ray diffraction. The protein is a tetramer with 222 symmetry, and each monomer presents a novel fold with two beta sheets connected by a helix-loop-helix motif. Selectivity was studied by examining the binding of four monosaccharides and seven disaccharides in two different crystal forms. The T-antigen disaccharide, Galbeta1-3GalNAc, mediator of the antiproliferative effects of the protein, binds at a shallow depression on the surface of the molecule. The binding of N-acetylgalactosamine overlaps with that moiety of the T antigen, but surprisingly, N-acetylglucosamine, which differs from N-acetylgalactosamine only in the configuration of epimeric hydroxyl 4, binds at a totally different site on the opposite side of the helix-loop-helix motif. The lectin thus has two distinct binding sites per monomer that recognize the different configuration of a single epimeric hydroxyl. The structure of the protein and its two carbohydrate-binding sites are described in detail in this study.


    Related Citations: 
    • Crystallization and preliminary X-ray study of the common edible mushroom (Agaricus bisporus) lectin
      Carrizo, M.E., Irazoqui, F.J., Lardone, R.D., Nores, G.A., Curtino, J.A., Capaldi, S., Perduca, M., Monaco, H.L.
      (2004) Acta Crystallogr D Biol Crystallogr 60: 718

    Organizational Affiliation

    Biocrystallography Laboratory, Department of Science and Technology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
lectinA, B142Agaricus bisporusMutation(s): 0 
UniProt
Find proteins for Q00022 (Agaricus bisporus)
Explore Q00022 
Go to UniProtKB:  Q00022
Protein Feature View
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranoseC, D2N/A Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G00056MO
GlyCosmos:  G00056MO
GlyGen:  G00056MO
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.203 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.61α = 90
b = 96.09β = 90
c = 75.06γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MAR345data collection
AUTOMARdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-12-21
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary