title: Computational design of short-chain dehydrogenase Gox2181 for altered coenzyme specificity.
abstract: Short-chain dehydrogenase Gox2181 from Gluconobacter oxydans catalyzes the reduction of 2,3-pentanedione by using NADH as the physiological electron donor. To realize its synthetic biological application for coenzyme recycling use, computational design and site-directed mutagenesis have been used to engineer Gox2181 to utilize not only NADH but also NADPH as the electron donor. Single and double mutations at residues Q20 and D43 were made in a recombinant expression system that corresponded to Gox2181-D43Q and Gox2181-Q20R&D43Q, respectively. The design of mutant Q20R not only resolved the hydrogen bond interaction and electrostatic interaction between R and 2'-phosphate of NADPH, but also could enhance the binding with 2'-phophated of NADPH by combining with D43Q. Molecular dynamics simulation has been carried out to testify the hydrogen bond interactions between mutation sites and 2'-phosphate of NADPH. Steady-state turnover measurement results indicated that Gox2181-D43Q could use both NADH and NADPH as its coenzyme, and so could Gox2181-Q20R&D43Q. Meanwhile, compared to the wild-type enzyme, Gox2181-D43Q exhibited dramatically reduced enzymatic activity while Gox2181-Q20R&D43Q successfully retained the majority of enzymatic activity.
authors.affiliation: State Key Laboratory of Bioreactor Engineering, New World Institute of Biotechnology, East China University of Science and Technology, Shanghai 200237, PR China.
authors.forename: Dongbing
authors.initials: D
authors.lastname: Cui
authors.forename: Lujia
authors.initials: L
authors.lastname: Zhang
authors.forename: Lujiang
authors.initials: L
authors.lastname: Zhang
authors.forename: Zhiqiang
authors.initials: Z
authors.lastname: Yao
authors.forename: Xu
authors.initials: X
authors.lastname: Liu
authors.forename: Jinping
authors.initials: J
authors.lastname: Lin
authors.forename: Y Adam
authors.initials: YA
authors.lastname: Yuan
authors.forename: Dongzhi
authors.initials: D
authors.lastname: Wei
mesh_terms: D001426:Bacterial Proteins / Q000378:metabolism; D003067:Coenzymes / Q000737:chemistry* / Q000378:metabolism; D064429:Fatty Acid Synthases / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D020600:Gluconobacter oxydans / Q000201:enzymology*; D006859:Hydrogen / Q000378:metabolism; D056004:Molecular Dynamics Simulation; D016297:Mutagenesis, Site-Directed; D050505:Mutant Proteins / Q000737:chemistry / Q000378:metabolism; D009243:NAD / Q000378:metabolism; D009247:NADH, NADPH Oxidoreductases / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D009249:NADP / Q000378:metabolism; D015202:Protein Engineering
chemical_list: D001426:Bacterial Proteins; D003067:Coenzymes; D050505:Mutant Proteins; D009243:NAD; D009249:NADP; D006859:Hydrogen; C036543:short chain trans-2-enoyl-CoA reductase; D009247:NADH, NADPH Oxidoreductases; D064429:Fatty Acid Synthases
keywords: Altered coenzyme specificity; Computational design; Molecular dynamics simulation; Site-directed mutagenesis