RLCP 1.13.7495.- :EzCatDB EzCatDB

R L C P
Hierarchic Classification of Catalytic Mechanisms


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

L 1.13.-.- : Amide bond (One of Carbonyl Ester bonds; including peptide bond) (Ligand group involved)

C 1.13.7495.- : E.coli N-Acetyl-D-glucosamine-6-phosphate deacetylase-like mechanism (Acid-Base/Modulator-Stabilizer); Inorganic cofactor-assisted activation of water and scissile bond; Modulator-assisted activation of scissile bond; Base deprotonation of water; Activated water attacks on scissile bond forming intermediate; Intermediate stabilized by inorganic cofactor and stabilizer; Acid protonation to leaving group; SN2-like reaction (Catalytic mechanism)

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

Residues/Cofactors involved in Proteins

  • 1.13.7495.453 : An acidic residue + His + zinc ion bound to His/(acidic residue) cluster

    • 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 -)