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      The catalytic power of magnesium chelatase: a benchmark for the AAA + ATPases

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          Abstract

          In the first committed reaction of chlorophyll biosynthesis, magnesium chelatase couples ATP hydrolysis to the thermodynamically unfavorable Mg 2+ insertion into protoporphyrin IX (ΔG°′ of circa 25–33 kJ·mol −1). We explored the thermodynamic constraints on magnesium chelatase and demonstrate the effect of nucleotide hydrolysis on both the reaction kinetics and thermodynamics. The enzyme produces a significant rate enhancement ( k cat/ k uncat of 400 × 10 6 m) and a catalytic rate enhancement, k cat / K m DIX K 0.5 Mg k uncat , of 30 × 10 15 m −1, increasing to 300 × 10 15 m −1 with the activator protein Gun4. This is the first demonstration of the thermodynamic benefit of ATP hydrolysis in the AAA + family.

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          Most cited references22

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          The depth of chemical time and the power of enzymes as catalysts.

          The fastest known reactions include reactions catalyzed by enzymes, but the rate enhancements that enzymes produce had not been fully appreciated until recently. In the absence of enzymes, these same reactions are among the slowest that have ever been measured, some with half-times approaching the age of the Earth. This difference provides a measure of the proficiencies of enzymes as catalysts and their relative susceptibilities to inhibition by transition-state analogue inhibitors. Thermodynamic comparisons between spontaneous and enzyme-catalyzed reactions, coupled with structural information, suggest that in addition to electrostatic and H-bonding interactions, the liberation of water molecules from an enzyme's active site into bulk solvent sometimes plays a prominent role in determining the relative binding affinities of the altered substrate in the ground state and transition state. These comparisons also indicate a high level of synergism in the action of binding determinants of both the substrate and the enzyme, that are not directly involved in the chemical transformation of the substrate but contribute to the rate of its transformation at an enzyme's active site.
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            Benchmark reaction rates, the stability of biological molecules in water, and the evolution of catalytic power in enzymes.

            The rates of enzyme reactions fall within a relatively narrow range. To estimate the rate enhancements produced by enzymes, and their expected affinities for transition state analog inhibitors, it is necessary to measure the rates of the corresponding reactions in water in the absence of a catalyst. This review describes the spontaneous cleavages of C-C, C-H, C-N, C-O, P-O, and S-O bonds in biological molecules, as well as the uncatalyzed reactions that correspond to phosphoryl transfer reactions catalyzed by kinases and to peptidyl transfer in the ribosome. The rates of these reactions, some with half-lives in excess of one million years, span an overall range of 10¹⁹-fold. Moreover, the slowest reactions tend to be most sensitive to temperature, with rates that increase as much as 10⁷-fold when the temperature is raised from 25° to 100°C. That tendency collapses, by many orders of magnitude, the time that would have been required for chemical evolution on a warm earth. If the catalytic effect of primitive enzymes, like that of modern enzymes and many nonenzymatic catalysts, were mainly to reduce a reaction's enthalpy of activation, then the resulting rate enhancement would have increased automatically as the surroundings cooled. By reducing the time required for early chemical evolution in a warm environment, these findings counter the view that not enough time has passed for terrestrial life to have evolved to its present level of complexity.
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              Structural and biochemical characterization of Gun4 suggests a mechanism for its role in chlorophyll biosynthesis.

              Gun4 has been implicated in a developmental signaling pathway between the chloroplast and the nucleus involving magnesium protoporphyrin IX (MgP(IX)), the first dedicated intermediate in the chlorophyll biosynthetic pathway. Here we present the crystal structure of Thermosynechococcus elongatus Gun4 at 1.5 A, describe the binding affinities of Gun4 for substrate and product porphyrin molecules, and identify a likely (Mg)P(IX) binding site on the protein. Kinetic analyses show that Gun4 dramatically increases the efficiency of transformation of porphyrin substrate to metalloporphyrin product and that it also reduces the threshold Mg2+ concentration required for activity at low porphyrin concentration. Gun4 therefore controls magnesium chelatase at physiologically significant Mg2+ concentrations and likely acts as a molecular switch in vivo so that in its absence magnesium chelatase is inactive. This mechanism could allow Gun4 to mediate magnesium protoporphyrin levels both for chlorophyll biosynthesis and for signaling to the nucleus.
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                Author and article information

                Journal
                FEBS Lett
                FEBS Lett
                10.1002/(ISSN)1873-3468
                FEB2
                Febs Letters
                John Wiley and Sons Inc. (Hoboken )
                0014-5793
                1873-3468
                02 June 2016
                June 2016
                : 590
                : 12 ( doiID: 10.1111/feb2.2016.590.issue-12 )
                : 1687-1693
                Affiliations
                [ 1 ] Department of Molecular Biology and BiotechnologyUniversity of Sheffield UK
                [ 2 ] Department of ChemistryUniversity of Sheffield UK
                Author notes
                [*] [* ] Correspondence

                J. D. Reid, Department of Chemistry, University of Sheffield, Sheffield S3 7HF, UK

                Fax: +44 114 222 9346

                Tel: +44 114 222 29558

                E‐mail: j.reid@ 123456sheffield.ac.uk

                Author information
                http://orcid.org/0000-0003-3080-3448
                Article
                FEB212214
                10.1002/1873-3468.12214
                4982103
                27176620
                dd43ccb7-c1e2-430d-ab62-4b3987b3c27c
                © 2016 The Authors. FEBS Letters published by John Wiley & Sons Ltd on behalf of Federation of European Biochemical Societies

                This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 01 April 2016
                : 06 May 2016
                : 09 May 2016
                Page count
                Pages: 7
                Funding
                Funded by: BBSRC
                Award ID: BB/G021546/1
                Award ID: BB/M000265/1
                Categories
                Research Letter
                Research Letters
                Enzymology (Editor's choice)
                Custom metadata
                2.0
                feb212214
                June 2016
                Converter:WILEY_ML3GV2_TO_NLMPMC version:4.9.4 mode:remove_FC converted:12.08.2016

                Molecular biology
                atp hydrolysis,atpases associated with various cellular activities (aaa) magnesium protoporphyrin ix,chelatase,chlorophyll biosynthesis,gun4

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