2006 Fiscal Year Final Research Report Summary
Comprehensive analysis of the substrate-binding pocket relating to enantilselectivity of enzyme
| Project/Area Number |
16360411
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| Research Category |
Grant-in-Aid for Scientific Research (B)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
Biofunction/Bioprocess
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| Research Institution | Nagoya University |
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Principal Investigator |
NAKANO Hideo Nagoya University, Graduate School of Bioagricultural Sciences, Professor, 大学院生命農学研究科, 教授 (00237348)
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| Co-Investigator(Kenkyū-buntansha) |
IWASAKI Yugo Nagoya University, Graduate School of Bioagricultural Sciences, Associate Professor, 大学院生命農学研究科, 助教授 (50273214)
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| Project Period (FY) |
2004 – 2006
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| Keywords | lipase / cell-free protein synthesis / single-molecule PCR / enantioselectivity / high-throughput screening / emulsion |
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| Research Abstract |
In this research, it has aimed to create the lipase group that has a variety of substrate specificities by introducing the combinatorial mutation only into the substrate binding pocket of an industrially useful lipase as a structural frame. The outline of the result is shown as follows.
1. The combinatorial library where four amino acid in the substrate binding pocket had been made a target based on the computer model of the enzyme complex was made by the SIMPLEX method. Acquired data in the first screening was analyzed by fuzzy neural net work (FNN), and some fuzzy rules were derived from the analysis. Finally, the obtained rules were proven to be useful in obtaining new mutant enzymes.
2. The Burkholderia cepacia KWI-56 lipase shows only a low optical selectivity to 2-phenylbutyrate. Then, the structural model of the reaction intermediate between the substrate and the enzyme was constructed on the computer to give possible residues for introducing mutations. Four residues were selected in the pocket, and combinatorial mutation limited to the hydrophobic amino acids (seven kinds) was introduced to the selected site by the SIMPLEX method. The screening of the SIMPLEX library gave some clones showing a higher enantioselectivity than the wild type.
3.To make the SIMPLEX method more effective, a new technology amplifying single DNA molecules on microbeads in emulsion was developed. After one bead PCR on a 384-well plate, DNA library could be constructed on the plate. The mutation library of the lipase was constructed as above, and screened against the above-mentioned substrate, resulting that a high enantioselecitve mutant was obtained.
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Research Products
(18 results)
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[Journal Article] PCR amplification form single DNA molecules on magnetic beads in emulsion : application for high-throughput screening of transcription factor targets.2005
Author(s)
Kojima, T., Takei, Y., Ohtsuka, M., Kawarasaki, Y., Yamane, T., Nakano, H.
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Journal Title
Nucleic Acids Res. 33
Pages: e150
Description
「研究成果報告書概要(和文)」より
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[Journal Article] Novel strategy for protein exploration : high-throughput screening assisted with fuzzy neural network.2005
Author(s)
Kato, R., Nakano, H., Konishi, H., Kato, K., Koga, Y., Yamane, T., Kobayashi, T., Honda, H.
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Journal Title
Journal of Molecular Biology 351
Pages: 683-692
Description
「研究成果報告書概要(和文)」より
-
[Journal Article] PCR amplification form single DNA molecules on magnetic beads in emulsion : application for high-throughput screening of transcription factor targets.2005
Author(s)
Kojima, T., Takei, Y., Ohtsuka, M., Kawaras aki, Y., Yamane, T., Nakano, H.
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Journal Title
Nucleic Acids Res 33
Pages: e150
Description
「研究成果報告書概要(欧文)」より
-
[Journal Article] Novel strategy for protein exploration : high-throughput screening assisted with fuzzy neural network.2005
Author(s)
Kato, R., Nakano, H., Konishi, H., Kato, K., Koga, Y., Yamane, T., Kobayashi, T., Ho nda, H.
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Journal Title
Journal of Molecular Biology 351
Pages: 683-692
Description
「研究成果報告書概要(欧文)」より
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