EzCatDB

R L C P
Hierarchic Classification of Catalytic Mechanisms


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

L 1.40.-.- : C-N bond (N-glycoside bond) (Ligand group involved)


Catalytic mechanisms

  • 1.40.300.- : Exoglucanase-II-like mechanism (Acid/Base); Base-activated water directly attacks on substrate & hydrolysis assisted by proton donor (SN2)
  • 1.40.4930.- : Uracil-DNA glycosylase-like mechanism (Base-Stabilizer/Acid-Stabilizer); Substrate-assisted stabilization of SN1-like transition state; Base activation of water; nucleophilic attack by water molecule; Acid protonation to leaving group
  • 1.40.6430.- : AlkA-DNA-glycosylase-like mechanism (Stabilizer); To-be-hydrolyzed group leads to transition-state; Stabilization of transition-state leads to SN1-like bond cleavage; Leaving group acts as a (substrate-assisted) base to activate water; Water attacks on the transition-state
  • 1.40.7050.- : TAG-DNA-glycosylase-like mechanism (Stabilizer); Stabilization of leaving group leads to transition-state; Water attacks on the transition-state; SN1-like reaction
  • 1.40.14550.- : IU-nucleoside hydrolase-like mechanism (Acid/Base); Cofactor-assisted water activation by base; Protonation to leaving group by acid; Nucleophilic attack of water on the bond leads to SN1-like reaction
  • 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 -)