title: Combining rational and random strategies in β-glucosidase Zm-p60.1 protein library construction.
abstract: Saturation mutagenesis is a cornerstone technique in protein engineering because of its utility (in conjunction with appropriate analytical techniques) for assessing effects of varying residues at selected positions on proteins' structures and functions. Site-directed mutagenesis with degenerate primers is the simplest and most rapid saturation mutagenesis technique. Thus, it is highly appropriate for assessing whether or not variation at certain sites is permissible, but not necessarily the most time- and cost-effective technique for detailed assessment of variations' effects. Thus, in the presented study we applied the technique to randomize position W373 in β-glucosidase Zm-p60.1, which is highly conserved among β-glucosidases. Unexpectedly, β-glucosidase activity screening of the generated variants showed that most variants were active, although they generally had significantly lower activity than the wild type enzyme. Further characterization of the library led us to conclude that a carefully selected combination of randomized codon-based saturation mutagenesis and site-directed mutagenesis may be most efficient, particularly when constructing and investigating randomized libraries with high fractions of positive hits.
authors.affiliation: Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. CEITEC - Central European Institute of Technology, Mendel University in Brno, Brno, Czech Republic.
authors.forename: Dušan
authors.initials: D
authors.lastname: Turek
authors.affiliation: Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. CEITEC - Central European Institute of Technology, Mendel University in Brno, Brno, Czech Republic.
authors.forename: Pavel
authors.initials: P
authors.lastname: Klimeš
authors.affiliation: Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. CEITEC - Central European Institute of Technology, Mendel University in Brno, Brno, Czech Republic.
authors.forename: Pavel
authors.initials: P
authors.lastname: Mazura
authors.affiliation: Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. CEITEC - Central European Institute of Technology, Mendel University in Brno, Brno, Czech Republic.
authors.forename: Břetislav
authors.initials: B
authors.lastname: Brzobohatý
mesh_terms: D003062:Codon; D019295:Computational Biology; D030562:Databases, Protein; D004789:Enzyme Activation; D015723:Gene Library; D006868:Hydrolysis; D016296:Mutagenesis; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism*; D015202:Protein Engineering / Q000379:methods; D013379:Substrate Specificity; D003313:Zea mays / Q000235:genetics / Q000378:metabolism*; D001617:beta-Glucosidase / Q000235:genetics / Q000378:metabolism*
chemical_list: D003062:Codon; D010940:Plant Proteins; D001617:beta-Glucosidase