title: The novel approach to the protein design: active truncated forms of human 1-CYS peroxiredoxin.
abstract: The object of the present study is the verification of a new approach to the design of the active truncated forms of enzymes. The method is based on a new way of investigating the protein sequences--the ANalysis of Informational Structure (ANIS). The analysis of informational structure allows to determine the hierarchically organized structures (IDIC-trees) formed by the sites with the Increased Degree of Informational Coordination between residues. The proposed approach involves the consequent removal of the fragments corresponding to the individual IDIC-trees from the wild-type enzyme sequences. The described procedure was applied to the design of the active truncated form of human 1-CYS peroxiredoxin (PrxVI). Two variants of the PrxVI truncated sequences were proposed according to ANIS method. These truncated forms of the enzyme were expressed in E. coli and purified. The respective antioxidant activities were measured. It was shown that one of the truncated recombinant proteins retains more than 90% of the wild-type PrxVI enzymatic activity. According to the results of our study we can assume that ANIS method can be an effective tool for the design of the active truncated forms of the enzymes or the chimeric proteins which combine the enzymatic activities of their wild-type prototypes.
authors.affiliation: Group of Computer Graphics, Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia. alexei_nekrasov@mail.ru
authors.forename: A N
authors.initials: AN
authors.lastname: Nekrasov
authors.forename: V V
authors.initials: VV
authors.lastname: Radchenko
authors.forename: T M
authors.initials: TM
authors.lastname: Shuvaeva
authors.forename: V I
authors.initials: VI
authors.lastname: Novoselov
authors.forename: E E
authors.initials: EE
authors.lastname: Fesenko
authors.forename: V M
authors.initials: VM
authors.lastname: Lipkin
mesh_terms: D000975:Antioxidants / Q000737:chemistry* / Q000378:metabolism; D001665:Binding Sites; D015195:Drug Design; D004926:Escherichia coli / Q000201:enzymology; D005974:Glutamate-Ammonia Ligase / Q000378:metabolism; D006801:Humans; D008958:Models, Molecular; D009195:Peroxidase / Q000378:metabolism; D010544:Peroxidases / Q000737:chemistry* / Q000378:metabolism; D054464:Peroxiredoxins; D017510:Protein Folding; D017433:Protein Structure, Secondary; D011994:Recombinant Proteins / Q000737:chemistry* / Q000378:metabolism
chemical_list: D000975:Antioxidants; D011994:Recombinant Proteins; D010544:Peroxidases; D054464:Peroxiredoxins; D009195:Peroxidase; D005974:Glutamate-Ammonia Ligase