Original Paper

Journal of Molecular Modeling

, Volume 13, Issue 11, pp 1133-1139

The studies on substrate, product and inhibitor binding to a wild-type and neuronopathic form of human acid-β-glucosidase

  • Igor Z. ZubrzyckiAffiliated withDepartment of Biotechnology, University of Rzeszow Email author 
  • , Agnieszka BorczAffiliated withDepartment of Biotechnology, University of Rzeszow
  • , Magdalena WiacekAffiliated withDepartment of Biotechnology, University of Rzeszow
  • , Wojciech HagnerAffiliated withDepartment of Rehabilitation, Collegium Medicum, Nicolas Copernicus University

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Abstract

Gaucher disease is a lysosomal storage disorder caused by deficiency of human acid β-glucosidase. Recent x-ray structural elucidation of the enzyme alone and in the presence of its inhibitor was done, which provided an excellent template for further studies on the binding of substrate, product and inhibitor. To draw correlations between the clinical manifestation of the disease driven by point mutations, L444P and L444R, and the placement and function of putative S-binding sites, the presented theoretical studies were undertaken, which comprised of molecular dynamics and molecular docking methods. The obtained results indicate the D443 and D445 residues as extremely important for physiological functionality of an enzyme. They also show, although indirectly, that binding of the substrate is influenced by an interplay of E235 and E334 residues, constituting putative substrate binding site, and the region flanked by D435 and D445 residues.

http://static-content.springer.com/image/art%3A10.1007%2Fs00894-007-0232-5/MediaObjects/894_2007_232_Figa_HTML.jpg
Figure

The binding of an arbitrarily chosen structure of glucosylceramide (A), conduritol-β-epoxide (B), glucose (C) to the active site D443/D445 (A1, B1, C1) and E320/E340 (A2, B2, C2) of the wild-type structure of human acid-β-glucosidase. A1, B1, C1 blue mask represents the residues D443-D445; red mask represents the residue D444; A2, B2, C2 blue mask represents loop1 (Ser345-Glu349) and loop2 (Val394-Asp399), whereas red mask the residues E235 and 340

Keywords

Human acid-β-glucosidase Molecular dynamics Molecular docking S-binding place Mutations