EzCatDB

R L C P
Hierarchic Classification of Catalytic Mechanisms


R 3.-.-.- : Transfer (bond cleavage and new bond formation) (Reaction)

L 3.1177.-.- : Acyl group from Sulfur atom to Sulfur atom (Ligand group involved)

C 3.1177.805.- : Dihydrolipoamide-succinyltransferase-like mechanism (Acid-Base/Modulator/Stabilizer); SN2-like reaction; Modulator-assisted base activation of acceptor group; Nucleophilic attack on transferred group by activated acceptor group; Stablization of transition state & Modulator-assisted acid protonation to transferred group (Catalytic mechanism)


1st Nucleophile : an acceptor group in substrate
Catalytic groups : groups in residue/substrate
General Base : a catalytic residue
General Acid : a catalytic residue

Residues/Cofactors involved in Proteins

  • 3.1177.805.79 : His/Asn + mainchain carbonyl + a residue with hydroxyl group [Ser or Thr]
  • 3.1177.805.87 : His/Asp/Arg + mainchain carbonyl + a residue with hydroxyl group [Ser or Thr]
  • 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 -)