EzCatDB

R L C P
Hierarchic Classification of Catalytic Mechanisms


R 1.-.-.- : Hydrolysis (bond cleavage by water) (Reaction)

L 1.12.-.- : Carboxylic Ester (One of Carbonyl Ester bonds) (Ligand group involved)


Catalytic mechanisms

  • 1.12.30000.- : Trypsin-like mechanism (Nucleophile/Acid-Base/Modulator/Stabilizer); Modulator-assisted base activation of nucleophile; Nucleophilic attack on target bond; SN2-like reaction; covalent bond between enzyme and substrate; followed by protonation to leaving group; hydrolysis by base-activated water
  • 1.12.30190.- : Pectinesterase A-like mechanism (Nucleophile/Acid-Base/Modulator/Stabilizer); double-displacement; Modulator-activated Nucleophile attack on target bond; covalent bond formation between nucleophile and target atom; intermediate stabililized; protonation to 1st leaving group by acid; intermediate attacked by base-activated water to complete reaction
  • 1.12.38700.- : Phospholipase-A1-like mechanism (Nucleophile/Acid-Base/Modulator/Stabilizer); Inorganic cofactor-assisted activation of target bond; Inorganic cofactor-assisted base activation of nucleophile; Nucleophilic attack on target bond forming intermediate; Inorganic cofactor-assisted stabilization of intermediate; Nucleophilic attack by water on intermediate
  • Copyright: Nozomi Nagano, JST & CBRC-AIST
    Funded by PRESTO/Japan Science and Technology Agency (JST) (December 2001 - November 2004)
    Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2005 - March 2006)
    Funded by Grant-in-Aid for Scientific Research (B)/Japan Society for the Promotion of Science (JSPS) (April 2005 - March 2008)
    Funded by BIRD/Japan Science and Technology Agency (JST) (September 2005 - September 2008)
    Funded by BIRD/Japan Science and Technology Agency (JST) (October 2007 - September 2010)
    Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2011 - March 2012)
    Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2012 - March 2013)
    Supported by the commission for the Development of Artificial Gene Synthesis Technology for Creating Innovative Biomaterial from the Ministry of Economy, Trade and Industry (METI) (October 2012 - March 2016)
    Funded by the project commissioned by the New Energy and Industrial Technology Development Organization (NEDO) (April 2016 -)