EzCatDB

R L C P
Hierarchic Classification of Catalytic Mechanisms


R 5.-.-.- : Eliminative double-bond formation (bond cleavage and increased bond-order) (Reaction)

L 5.41.-.- : Phosphoryl oxygen (O3P-O-) from Carbon (sp3) (with hydroxyl group) [leading to carbonyl group] (Ligand group involved)

C 5.41.2776000.- : Acid-Base/Stabilizer; Inorganic cofactor-assisted stabilization of group attached to elimination site of leaving group; Acid protonation to elimination group; Base deprotonation of deprotonation site of leaving group; Stabilization of eliminated group facilitates bond cleavage; E1-like reaction (Catalytic mechanism)

P 5.41.2776000.400 : Lys/Arg + mainchain amide + a divalent metal bound to Cys/His/Acidic residues (Residues/cofactors in Protein)


1st Nucleophile : non-existent
Catalytic groups : cofactor + groups in residue/substrate
General Base : a catalytic residue
General Acid : a catalytic residue

Related Enzymes

There are 2 entries in this class.
  • S00243 : (reaction 3) 2.5.1.54; Phospho-2-dehydro-3-deoxyheptonate aldolase (Catalytic domain; 3.20.20.70)
  • S00532 : (reaction 3) 2.5.1.55; 2-dehydro-3-deoxyphosphooctonate aldolase (Catalytic domain; 3.20.20.70)
  • 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 -)