論文

査読有り
2014年4月

Nylon-Oligomer Hydrolase Promoting Cleavage Reactions in Unnatural Amide Compounds

JOURNAL OF PHYSICAL CHEMISTRY LETTERS
  • Katsumasa Kamiya
  • ,
  • Takeshi Baba
  • ,
  • Mauro Boero
  • ,
  • Toru Matsui
  • ,
  • Seiji Negoro
  • ,
  • Yasuteru Shigeta

5
7
開始ページ
1210
終了ページ
1216
記述言語
英語
掲載種別
研究論文(学術雑誌)
DOI
10.1021/jz500323y
出版者・発行元
AMER CHEMICAL SOC

The active site of 6-aminohexanoate-dimer hydrolase, a nylon-6 byproduct-degrading enzyme with a beta-lactamase fold, possesses a Ser112/Lys115/Tyr215 catalytic triad similar to the one of penicillin-recognizing family of serine-reactive hydrolases but includes a unique Tyr170 residue. By using a reactive quantum mechanics/molecular mechanics (QM/MM) approach, we work out its catalytic mechanism and related functional/structural specificities. At variance with other peptidases, we show that the involvement of Tyr170 in the enzyme-substrate interactions is responsible for a structural variation in the substrate-binding state. The acylation via a tetrahedral intermediate is the rate-limiting step, with a free-energy barrier of similar to 21 kcal/mol, driven by the catalytic triad Ser112, Lys115, and Tyr215, acting as a nucleophile, general base, and general acid, respectively. The functional interaction of Tyr170 with this triad leads to an efficient disruption of the tetrahedral intermediate, promoting a conformational change of the substrate favorable for proton donation from the general acid.

リンク情報
DOI
https://doi.org/10.1021/jz500323y
PubMed
https://www.ncbi.nlm.nih.gov/pubmed/26274473
Web of Science
https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=JSTA_CEL&SrcApp=J_Gate_JST&DestLinkType=FullRecord&KeyUT=WOS:000333947700027&DestApp=WOS_CPL
ID情報
  • DOI : 10.1021/jz500323y
  • ISSN : 1948-7185
  • PubMed ID : 26274473
  • Web of Science ID : WOS:000333947700027

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