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Agency: European Commission | Branch: FP7 | Program: CP-SICA | Phase: KBBE-2008-3-2-01 | Award Amount: 5.19M | Year: 2009

IRENE project aims at overcoming existing bottlenecks for a broader diffusion of biocatalysis and at accelerating the sustainable innovation of chemical industry by developing computational methods and strategies that will enable to rationally design and produce the next generation of biocatalysts for industrial applications. The consortium is funded on the combination of robust multidisciplinary expertise from EU, Russia and Uzbekistan. Due to the interaction between theoretical groups and experimentalists all computational tools used in this project will be validated by experiments. Failures and successes will be used for methods evaluation and tuning, in an iterative process that will lead to new methods but also to the definition of practical guidelines, for any specific enzyme design issue. The convergence of different expertise will face 4 main tasks: 1) fast rational design of efficient biocatalysts; 2) fast and efficient in silico screening of available enzymes/mutants to exploit catalytic potential of existing biocatalyst and providing quantitative parameters describing enzymes efficiency; 3) fast substrate-screening and rational substrate engineering; 4) understanding molecular basis of biocatalyst action and properties. IRENE will pursue these objectives by taking advantage of computational strategies used in different disciplines and integrate them in an unified concept for studying enzyme catalysis. The four main families of computational methods, Quantum Mechanics, Molecular Mechanics, Quantitative Structure Activity Relationships and Bioinformatics, will used in an integrated approach. The project will have three major design subjects: 1) introduction of new activities in specific enzyme scaffolds (reaction promiscuity); 2) improvement of catalytic activity towards specific targets (substrate promiscuity); 3) the redesign of enantioselectivity. For each subject the work will focus on different specific enzymatic activities of industrial relevance.

Kondakova O.A.,Moscow State University | Butenko K.O.,Moscow State University | Skurat E.V.,Moscow State University | Drygin Y.F.,Belozersky Institute of Physicochemical Biology
Moscow University Biological Sciences Bulletin | Year: 2016

An immunochromatography test system has been developed for molecular diagnostics of the potato virus Y and PLRV infection. To increase a low yield of PLRV and raise antibodies against the PLRV antigen, chimerical virus was constructed comprising the PLRV coat protein and recombinant RNA of a tobamovirus, in which capsid protein gene was replaced by the PLRV coat protein gene. Binary vector containing the DNA copy of the recombinant RNA was infectious, and yield of the chimerical virus increased up to 800 times in comparison with the wild type PLRV. On the basis of experience in the development of the diagnostics of viral and viroid infections, rational tactics are proposed for the mass laboratory and field diagnosis of viral infections on the molecular level. © 2016, Allerton Press, Inc.

Sumbatyan N.V.,Moscow State University | Kuznetsova I.V.,Moscow State University | Karpenko V.V.,Moscow State University | Fedorova N.V.,Belozersky Institute of Physicochemical Biology | And 3 more authors.
Russian Journal of Bioorganic Chemistry | Year: 2010

Fourteen new functionally active amino acid and peptide derivatives of the antibiotics tylosin, desmycosin, and 5-O-mycaminosyltylonolide were synthesized in order to study the interaction of the growing polypeptide chain with the ribosomal tunnel. The conjugation of various amino acids and peptides with a macrolide aldehyde group was carried out by two methods: direct reductive amination with the isolation of the intermediate Schiff bases or through binding via oxime using the preliminarily obtained derivatives of 2-aminooxy-acetic acid. © 2010 Pleiades Publishing, Ltd.

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