Literature DB >> 19848417

Tryptophan synthase: structure and function of the monovalent cation site.

Adam T Dierkers1, Dimitri Niks, Ilme Schlichting, Michael F Dunn.   

Abstract

The monovalent cation (MVC) site of the tryptophan synthase from Salmonella typhimurium plays essential roles in catalysis and in the regulation of substrate channeling. In vitro, MVCs affect the equilibrium distribution of intermediates formed in the reaction of l-Ser with the alpha(2)beta(2) complex; the MVC-free, Cs(+)-bound, and NH(4)(+)-bound enzymes stabilize the alpha-aminoacrylate species, E(A-A), while Na(+) binding stabilizes the l-Ser external aldimine species, E(Aex(1)). Two probes of beta-site reactivity and conformation were used herein, the reactive indole analogue, indoline, and the l-Trp analogue, l-His. MVC-bound E(A-A) reacts rapidly with indoline to give the indoline quinonoid species, E(Q)(indoline), which slowly converts to dihydroiso-l-tryptophan. MVC-free E(A-A) gives very little E(Q)(indoline), and turnover is strongly impaired; the fraction of E(Q)(indoline) formed is <3.5% of that given by the Na(+)-bound form. The reaction of l-Ser with the MVC-free internal aldimine species, E(Ain), initially gives small amounts of an active E(A-A) which converts to an inactive species on a slower, conformational, time scale. This inactivation is abolished by the binding of MVCs. The inactive E(A-A) appears to have a closed beta-subunit conformation with an altered substrate binding site that is different from the known conformations of tryptophan synthase. Reaction of l-His with E(Ain) gives an equilibrating mixture of external aldimine and quinonoid species, E(Aex)(his) and E(Q)(his). The MVC-free and Na(+) forms of the enzyme gave trace amounts of E(Q)(his) ( approximately 1% of the beta-sites). The Cs(+) and NH(4)(+) forms gave approximately 17 and approximately 14%, respectively. The reactivity of MVC-free E(Ain) was restored by the binding of an alpha-site ligand. These studies show MVCs and alpha-site ligands act synergistically to modulate the switching of the beta-subunit from the open to the closed conformation, and this switching is crucial to the regulation of beta-site catalytic activity. Comparison of the structures of Na(+) and Cs(+) forms of the enzyme shows Cs(+) favors complexes with open indole binding sites poised for the conformational transition to the closed state, whereas the Na(+) form does not. The beta-subunits of Cs(+) complexes exhibit preformed indole subsites; the indole subsites of the open Na(+) complexes are collapsed, distorted, and too small to accommodate indole.

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Year:  2009        PMID: 19848417      PMCID: PMC3424278          DOI: 10.1021/bi9008374

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  42 in total

Review 1.  Role of Na+ and K+ in enzyme function.

Authors:  Michael J Page; Enrico Di Cera
Journal:  Physiol Rev       Date:  2006-10       Impact factor: 37.312

2.  Structure and mechanistic implications of a tryptophan synthase quinonoid intermediate.

Authors:  Thomas R M Barends; Tatiana Domratcheva; Victor Kulik; Lars Blumenstein; Dimitri Niks; Michael F Dunn; Ilme Schlichting
Journal:  Chembiochem       Date:  2008-05-05       Impact factor: 3.164

3.  Synergistic effects on escape of a ligand from the closed tryptophan synthase bienzyme complex.

Authors:  Rodney M Harris; Huu Ngo; Michael F Dunn
Journal:  Biochemistry       Date:  2005-12-27       Impact factor: 3.162

Review 4.  Tryptophan synthase: the workings of a channeling nanomachine.

Authors:  Michael F Dunn; Dimitri Niks; Huu Ngo; Thomas R M Barends; Ilme Schlichting
Journal:  Trends Biochem Sci       Date:  2008-05-15       Impact factor: 13.807

5.  Mechanisms of monovalent cation action in enzyme catalysis: the tryptophan synthase alpha-, beta-, and alpha beta-reactions.

Authors:  E Woehl; M F Dunn
Journal:  Biochemistry       Date:  1999-06-01       Impact factor: 3.162

6.  Mechanisms of monovalent cation action in enzyme catalysis: the first stage of the tryptophan synthase beta-reaction.

Authors:  E Woehl; M F Dunn
Journal:  Biochemistry       Date:  1999-06-01       Impact factor: 3.162

7.  Hydrostatic pressure affects the conformational equilibrium of Salmonella typhimurium tryptophan synthase.

Authors:  Robert S Phillips; Edith W Miles; Georg Holtermann; Roger S Goody
Journal:  Biochemistry       Date:  2005-05-31       Impact factor: 3.162

8.  BetaQ114N and betaT110V mutations reveal a critically important role of the substrate alpha-carboxylate site in the reaction specificity of tryptophan synthase.

Authors:  Lars Blumenstein; Tatiana Domratcheva; Dimitri Niks; Huu Ngo; Ralf Seidel; Michael F Dunn; Ilme Schlichting
Journal:  Biochemistry       Date:  2007-11-16       Impact factor: 3.162

9.  Synthesis and characterization of allosteric probes of substrate channeling in the tryptophan synthase bienzyme complex.

Authors:  Huu Ngo; Rodney Harris; Novelle Kimmich; Patricia Casino; Dimitri Niks; Lars Blumenstein; Thomas Reinier Barends; Victor Kulik; Michael Weyand; Ilme Schlichting; Michael F Dunn
Journal:  Biochemistry       Date:  2007-06-09       Impact factor: 3.162

10.  Allosteric regulation of substrate channeling in tryptophan synthase: modulation of the L-serine reaction in stage I of the beta-reaction by alpha-site ligands.

Authors:  Huu Ngo; Novelle Kimmich; Rodney Harris; Dimitri Niks; Lars Blumenstein; Victor Kulik; Thomas Reinier Barends; Ilme Schlichting; Michael F Dunn
Journal:  Biochemistry       Date:  2007-06-09       Impact factor: 3.162

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  11 in total

Review 1.  Allosteric regulation of substrate channeling and catalysis in the tryptophan synthase bienzyme complex.

Authors:  Michael F Dunn
Journal:  Arch Biochem Biophys       Date:  2012-02-02       Impact factor: 4.013

2.  Allostery and substrate channeling in the tryptophan synthase bienzyme complex: evidence for two subunit conformations and four quaternary states.

Authors:  Dimitri Niks; Eduardo Hilario; Adam Dierkers; Huu Ngo; Dan Borchardt; Thomas J Neubauer; Li Fan; Leonard J Mueller; Michael F Dunn
Journal:  Biochemistry       Date:  2013-09-06       Impact factor: 3.162

Review 3.  Molecular Mechanisms of Enzyme Activation by Monovalent Cations.

Authors:  David W Gohara; Enrico Di Cera
Journal:  J Biol Chem       Date:  2016-07-26       Impact factor: 5.157

4.  Catalytic roles of βLys87 in tryptophan synthase: (15)N solid state NMR studies.

Authors:  Bethany G Caulkins; Chen Yang; Eduardo Hilario; Li Fan; Michael F Dunn; Leonard J Mueller
Journal:  Biochim Biophys Acta       Date:  2015-02-14

5.  Crystal structure of D-serine dehydratase from Escherichia coli.

Authors:  Darya V Urusova; Michail N Isupov; Svetlana Antonyuk; Galina S Kachalova; Galina Obmolova; Alexei A Vagin; Andrey A Lebedev; Gleb P Burenkov; Zbigniew Dauter; Hans D Bartunik; Victor S Lamzin; William R Melik-Adamyan; Thomas D Mueller; Klaus D Schnackerz
Journal:  Biochim Biophys Acta       Date:  2011-11-27

6.  Mutation of βGln114 to Ala Alters the Stabilities of Allosteric States in Tryptophan Synthase Catalysis.

Authors:  Rittik K Ghosh; Eduardo Hilario; Viktoriia Liu; Yangyang Wang; Dimitri Niks; Jacob B Holmes; Varun V Sakhrani; Leonard J Mueller; Michael F Dunn
Journal:  Biochemistry       Date:  2021-10-01       Impact factor: 3.321

7.  Visualizing the tunnel in tryptophan synthase with crystallography: Insights into a selective filter for accommodating indole and rejecting water.

Authors:  Eduardo Hilario; Bethany G Caulkins; Yu-Ming M Huang; Wanli You; Chia-En A Chang; Leonard J Mueller; Michael F Dunn; Li Fan
Journal:  Biochim Biophys Acta       Date:  2015-12-17

8.  Directed evolution of the tryptophan synthase β-subunit for stand-alone function recapitulates allosteric activation.

Authors:  Andrew R Buller; Sabine Brinkmann-Chen; David K Romney; Michael Herger; Javier Murciano-Calles; Frances H Arnold
Journal:  Proc Natl Acad Sci U S A       Date:  2015-11-09       Impact factor: 11.205

9.  Millisecond Timescale Motions Connect Amino Acid Interaction Networks in Alpha Tryptophan Synthase.

Authors:  Kathleen F O'Rourke; Jennifer M Axe; Rebecca N D'Amico; Debashish Sahu; David D Boehr
Journal:  Front Mol Biosci       Date:  2018-11-08

Review 10.  Gates of enzymes.

Authors:  Artur Gora; Jan Brezovsky; Jiri Damborsky
Journal:  Chem Rev       Date:  2013-04-25       Impact factor: 60.622

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