Literature DB >> 25104750

α-Fluorophosphonates reveal how a phosphomutase conserves transition state conformation over hexose recognition in its two-step reaction.

Yi Jin1, Debabrata Bhattasali2, Erika Pellegrini3, Stephanie M Forget2, Nicola J Baxter1, Matthew J Cliff4, Matthew W Bowler5, David L Jakeman6, G Michael Blackburn7, Jonathan P Waltho8.   

Abstract

β-Phosphoglucomutase (βPGM) catalyzes isomerization of β-D-glucose 1-phosphate (βG1P) into D-glucose 6-phosphate (G6P) via sequential phosphoryl transfer steps using a β-D-glucose 1,6-bisphosphate (βG16BP) intermediate. Synthetic fluoromethylenephosphonate and methylenephosphonate analogs of βG1P deliver novel step 1 transition state analog (TSA) complexes for βPGM, incorporating trifluoromagnesate and tetrafluoroaluminate surrogates of the phosphoryl group. Within an invariant protein conformation, the β-D-glucopyranose ring in the βG1P TSA complexes (step 1) is flipped over and shifted relative to the G6P TSA complexes (step 2). Its equatorial hydroxyl groups are hydrogen-bonded directly to the enzyme rather than indirectly via water molecules as in step 2. The (C)O-P bond orientation for binding the phosphate in the inert phosphate site differs by ∼ 30° between steps 1 and 2. By contrast, the orientations for the axial O-Mg-O alignment for the TSA of the phosphoryl group in the catalytic site differ by only ∼ 5°, and the atoms representing the five phosphorus-bonded oxygens in the two transition states (TSs) are virtually superimposable. The conformation of βG16BP in step 1 does not fit into the same invariant active site for step 2 by simple positional interchange of the phosphates: the TS alignment is achieved by conformational change of the hexose rather than the protein.

Entities:  

Keywords:  19F NMR; X-ray crystallography; phosphonate analogs; phosphoryl transfer mechanism; water-mediated substrate recognition

Mesh:

Substances:

Year:  2014        PMID: 25104750      PMCID: PMC4151737          DOI: 10.1073/pnas.1402850111

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  33 in total

1.  A KINETIC STUDY OF THE PHOSPHOGLUCOMUTASE PATHWAY.

Authors:  W J RAY; G A ROSCELLI
Journal:  J Biol Chem       Date:  1964-04       Impact factor: 5.157

2.  Structure and mechanism of action of a novel phosphoglycerate mutase from Bacillus stearothermophilus.

Authors:  M J Jedrzejas; M Chander; P Setlow; G Krishnasamy
Journal:  EMBO J       Date:  2000-04-03       Impact factor: 11.598

3.  Activation of orotidine 5'-monophosphate decarboxylase by phosphite dianion: the whole substrate is the sum of two parts.

Authors:  Tina L Amyes; John P Richard; James J Tait
Journal:  J Am Chem Soc       Date:  2005-11-16       Impact factor: 15.419

4.  Conformational cycling in beta-phosphoglucomutase catalysis: reorientation of the beta-D-glucose 1,6-(Bis)phosphate intermediate.

Authors:  Jianying Dai; Liangbing Wang; Karen N Allen; Peter Radstrom; Debra Dunaway-Mariano
Journal:  Biochemistry       Date:  2006-06-27       Impact factor: 3.162

5.  Theoretical study of magnesium fluoride in aqueous solution.

Authors:  Naoto Shibata; Hirofumi Sato; Shigeyoshi Sakaki; Yuji Sugita
Journal:  J Phys Chem B       Date:  2011-08-17       Impact factor: 2.991

6.  Kinetic analysis of beta-phosphoglucomutase and its inhibition by magnesium fluoride.

Authors:  Marko Golicnik; Luis F Olguin; Guoqiang Feng; Nicola J Baxter; Jonathan P Waltho; Nicholas H Williams; Florian Hollfelder
Journal:  J Am Chem Soc       Date:  2009-02-04       Impact factor: 15.419

7.  MgF(3)(-) and alpha-galactose 1-phosphate in the active site of beta-phosphoglucomutase form a transition state analogue of phosphoryl transfer.

Authors:  Nicola J Baxter; Andrea M Hounslow; Matthew W Bowler; Nicholas H Williams; G Michael Blackburn; Jonathan P Waltho
Journal:  J Am Chem Soc       Date:  2009-11-18       Impact factor: 15.419

8.  Caught in the act: the structure of phosphorylated beta-phosphoglucomutase from Lactococcus lactis.

Authors:  Sushmita D Lahiri; Guofeng Zhang; Debra Dunaway-Mariano; Karen N Allen
Journal:  Biochemistry       Date:  2002-07-02       Impact factor: 3.162

9.  The pentacovalent phosphorus intermediate of a phosphoryl transfer reaction.

Authors:  Sushmita D Lahiri; Guofeng Zhang; Debra Dunaway-Mariano; Karen N Allen
Journal:  Science       Date:  2003-03-13       Impact factor: 47.728

10.  A Trojan horse transition state analogue generated by MgF3- formation in an enzyme active site.

Authors:  Nicola J Baxter; Luis F Olguin; Marko Golicnik; Guoqiang Feng; Andrea M Hounslow; Wolfgang Bermel; G Michael Blackburn; Florian Hollfelder; Jonathan P Waltho; Nicholas H Williams
Journal:  Proc Natl Acad Sci U S A       Date:  2006-09-21       Impact factor: 11.205

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  14 in total

1.  Mechanistic Insights on Human Phosphoglucomutase Revealed by Transition Path Sampling and Molecular Dynamics Calculations.

Authors:  Natércia F Brás; Pedro A Fernandes; Maria J Ramos; Steven D Schwartz
Journal:  Chemistry       Date:  2018-01-04       Impact factor: 5.236

2.  General Linker Diversification Approach to Bivalent Ligand Assembly: Generation of an Array of Ligands for the Cation-Independent Mannose 6-Phosphate Receptor.

Authors:  Xiang Fei; Megan E Zavorka; Guillaume Malik; Christopher M Connelly; Richard G MacDonald; David B Berkowitz
Journal:  Org Lett       Date:  2017-07-28       Impact factor: 6.005

3.  Enzyme architecture: optimization of transition state stabilization from a cation-phosphodianion pair.

Authors:  Archie C Reyes; Astrid P Koudelka; Tina L Amyes; John P Richard
Journal:  J Am Chem Soc       Date:  2015-04-21       Impact factor: 15.419

Review 4.  Metal Fluorides: Tools for Structural and Computational Analysis of Phosphoryl Transfer Enzymes.

Authors:  Yi Jin; Robert W Molt; G Michael Blackburn
Journal:  Top Curr Chem (Cham)       Date:  2017-03-15

5.  CheckMyMetal: a macromolecular metal-binding validation tool.

Authors:  Heping Zheng; David R Cooper; Przemyslaw J Porebski; Ivan G Shabalin; Katarzyna B Handing; Wladek Minor
Journal:  Acta Crystallogr D Struct Biol       Date:  2017-02-22       Impact factor: 7.652

6.  Synthesis, Derivatization, and Structural Analysis of Phosphorylated Mono-, Di-, and Trifluorinated d-Gluco-heptuloses by Glucokinase: Tunable Phosphoglucomutase Inhibition.

Authors:  Jian-She Zhu; Kyle M Stiers; Sherany M Winter; Anthony D Garcia; Antoine F Versini; Lesa J Beamer; David L Jakeman
Journal:  ACS Omega       Date:  2019-04-18

7.  (19)F NMR and DFT Analysis Reveal Structural and Electronic Transition State Features for RhoA-Catalyzed GTP Hydrolysis.

Authors:  Yi Jin; Robert W Molt; Jonathan P Waltho; Nigel G J Richards; G Michael Blackburn
Journal:  Angew Chem Int Ed Engl       Date:  2016-01-28       Impact factor: 15.336

8.  1H, 15N, 13C backbone resonance assignments of human phosphoglycerate kinase in a transition state analogue complex with ADP, 3-phosphoglycerate and magnesium trifluoride.

Authors:  Zhalgas Serimbetov; Nicola J Baxter; Matthew J Cliff; Jonathan P Waltho
Journal:  Biomol NMR Assign       Date:  2017-09-02       Impact factor: 0.746

9.  Observing enzyme ternary transition state analogue complexes by 19F NMR spectroscopy.

Authors:  Anna Ampaw; Madison Carroll; Jill von Velsen; Debabrata Bhattasali; Alejandro Cohen; Matthew W Bowler; David L Jakeman
Journal:  Chem Sci       Date:  2017-10-23       Impact factor: 9.825

10.  Synthesis, structure and reactivity of a terminal magnesium fluoride compound, [TpBut,Me]MgF: hydrogen bonding, halogen bonding and C-F bond formation.

Authors:  Michael Rauch; Serge Ruccolo; John Paul Mester; Yi Rong; Gerard Parkin
Journal:  Chem Sci       Date:  2015-11-17       Impact factor: 9.825

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