RLCP 6.20.85210.- :EzCatDB EzCatDB

R L C P
Hierarchic Classification of Catalytic Mechanisms


R 6.-.-.- : Exchange of double-bonded atoms (Schiff-base related reaction) (Reaction)

L 6.20.-.- : Schiff-base nitrogen to Carbonyl oxygen (Schiff-base deformation; hydration) (Ligand group involved)

C 6.20.85210.- : Base/Acid/Modulator; Base-activated substituted group attacks on double-bond partner atom; Acid protonation to leaving group; Formation of tetrahedral intermediate; 2nd base deprotonation of substituted group; Lone pair on nucleophile attacks again on double-bond partner atom; Proton transfer from protonated base to deprotonated acid through cofactor/modulator and water; Organic-cofactor-assisted reaction (Catalytic mechanism)

1st Nucleophile : Substituted group (substrate or water)
Catalytic groups : cofactor + groups in residue/substrate
General Base : a catalytic residue
General Acid : a catalytic residue

Residues/Cofactors involved in Proteins

  • 6.20.85210.5511 : His/Lys/Tyr + PLP double-bonded to substrate/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 -)