title: Opposing influences by subsite -1 and subsite +1 residues on relative xylopyranosidase/arabinofuranosidase activities of bifunctional β-D-xylosidase/α-L-arabinofuranosidase.
abstract: Conformational inversion occurs 7-8kcal/mol more readily in furanoses than pyranoses. This difference is exploited here to probe for active-site residues involved in distorting pyranosyl substrate toward reactivity. Spontaneous glycoside hydrolysis rates are ordered 4-nitrophenyl-α-l-arabinofuranoside (4NPA)>4-nitrophenyl-β-d-xylopyranoside (4NPX)>xylobiose (X2). The bifunctional β-d-xylosidase/α-l-arabinofuranosidase exhibits the opposite order of reactivity, illustrating that the enzyme is well equipped in using pyranosyl groups of natural substrate X2 in facilitating glycoside hydrolysis. Probing the roles of all 17 active-site residues by single-site mutation to alanine and by changing both moieties of substrate demonstrates that the mutations of subsite -1 residues decrease the ratio k(cat)(4NPX/4NPA), suggesting that the native residues support pyranosyl substrate distortion, whereas the mutations of subsite +1 and the subsite -1/+1 interface residues increase the ratio k(cat)(4NPX/4NPA), suggesting that the native residues support other factors, such as C1 migration and protonation of the leaving group. Alanine mutations of subsite -1 residues raise k(cat)(X2/4NPX) and alanine mutations of subsite +1 and interface residues lower k(cat)(X2/4NPX). We propose that pyranosyl substrate distortion is supported entirely by native residues of subsite -1. Other factors leading to the transition state are supported entirely by native residues of subsite +1 and interface residues.
authors: National Center for Agricultural Utilization Research, US Department of Agriculture, Peoria, IL, USA. douglas.jordan@ars.usda.gov
authors: Douglas B
authors: DB
authors: Jordan
authors: Jay D
authors: JD
authors: Braker
mesh_terms: D019943:Amino Acid Substitution / Q000502:physiology; D001089:Arabinose / Q000031:analogs & derivatives / Q000378:metabolism; D002384:Catalysis; D020134:Catalytic Domain / Q000235:genetics; D006026:Glycoside Hydrolases / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism* / Q000502:physiology; D006863:Hydrogen-Ion Concentration; D007700:Kinetics; D008958:Models, Molecular; D050505:Mutant Proteins / Q000737:chemistry / Q000378:metabolism; D054730:Protein Interaction Domains and Motifs / Q000235:genetics; D020357:Selenomonas / Q000737:chemistry / Q000201:enzymology / Q000235:genetics; D013379:Substrate Specificity / Q000235:genetics; D014994:Xylose / Q000031:analogs & derivatives / Q000378:metabolism; D014995:Xylosidases / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism* / Q000502:physiology
chemical_list: D050505:Mutant Proteins; C431714:arabinofuranose; C431715:xylopyranose; D014994:Xylose; D001089:Arabinose; D006026:Glycoside Hydrolases; D014995:Xylosidases; C026579:exo-1,4-beta-D-xylosidase; C019713:alpha-N-arabinofuranosidase