Literature DB >> 21175136

Solid-state NMR and density functional theory studies of ionization states of thiamin.

Sivakumar Paramasivam1, Anand Balakrishnan, Olga Dmitrenko, Amy Godert, Tadhg P Begley, Frank Jordan, Tatyana Polenova.   

Abstract

Thiamin diphosphate (ThDP) is a key coenzyme in sugar metabolism. The 4'-aminopyrimidine ring of ThDP cycles through several ionization and tautomeric states during enzyme catalysis, but it is not fully understood which states are adopted during the individual steps of the catalytic cycle. Thiamin has been synthesized with labels selectively inserted into the C2 and C6' positions, as well as into the amino group, creating [C2, C6'-(13)C(2)] thiamin and [N4'-(15)N] thiamin. Magic-angle spinning (MAS) NMR spectroscopy has been employed to record the (13)C and (15)N chemical shift anisotropy (CSA) tensors for C2, C6', and N4' atoms. Our results indicate that the isotropic chemical shifts as well as the principal components of the (13)C and (15)N CSA tensors are very sensitive to the protonation states in these compounds and, therefore, permit differentiating between the two ionization states, 4-aminopyrimidine and 4-aminopyrimidinium. Using density functional theory (DFT), we have calculated the magnetic shielding anisotropy tensors of C2, C6', and N4' and found excellent agreement between the computed and the experimental tensors. Our findings indicate that MAS NMR spectroscopy in conjunction with DFT calculations is a sensitive probe of ionization states in the thiamin cofactor. The results of this study will serve as a guide for characterization of ionization and tautomeric states of thiamin in complexes with thiamin-dependent enzymes.

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Year:  2010        PMID: 21175136      PMCID: PMC3227141          DOI: 10.1021/jp109765b

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  22 in total

Review 1.  Current mechanistic understanding of thiamin diphosphate-dependent enzymatic reactions.

Authors:  Frank Jordan
Journal:  Nat Prod Rep       Date:  2003-04       Impact factor: 13.423

2.  The 1',4'-iminopyrimidine tautomer of thiamin diphosphate is poised for catalysis in asymmetric active centers on enzymes.

Authors:  Natalia Nemeria; Sumit Chakraborty; Ahmet Baykal; Lioubov G Korotchkina; Mulchand S Patel; Frank Jordan
Journal:  Proc Natl Acad Sci U S A       Date:  2006-12-20       Impact factor: 11.205

3.  Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density.

Authors: 
Journal:  Phys Rev B Condens Matter       Date:  1988-01-15

4.  Determination of the tautomeric form of the imidazole ring of L-histidine in basic solution by carbon-13 magnetic resonance spectroscopy.

Authors:  W F Reynolds; I R Peat; M H Freedman; J R Lyerla
Journal:  J Am Chem Soc       Date:  1973-01-24       Impact factor: 15.419

5.  An efficient enzymatic synthesis of thiamin pyrophosphate.

Authors:  Jonathan S Melnick; K Ingrid Sprinz; Jason J Reddick; Cynthia Kinsland; Tadhg P Begley
Journal:  Bioorg Med Chem Lett       Date:  2003-11-17       Impact factor: 2.823

6.  Identification of histidine tautomers in proteins by 2D 1H/13C(delta2) one-bond correlated NMR.

Authors:  James L Sudmeier; Elizabeth M Bradshaw; Kristin E Coffman Haddad; Regina M Day; Craig J Thalhauser; Peter A Bullock; William W Bachovchin
Journal:  J Am Chem Soc       Date:  2003-07-16       Impact factor: 15.419

7.  New evidence for cofactor's amino group function in thiamin catalysis by transketolase.

Authors:  Ludmilla E Meshalkina; German A Kochetov; Johanna Brauer; Gerhard Hübner; Kai Tittmann; Ralph Golbik
Journal:  Biochem Biophys Res Commun       Date:  2007-12-10       Impact factor: 3.575

8.  Glyoxylate carboligase lacks the canonical active site glutamate of thiamine-dependent enzymes.

Authors:  Alexander Kaplun; Elad Binshtein; Maria Vyazmensky; Andrea Steinmetz; Ze'ev Barak; David M Chipman; Kai Tittmann; Boaz Shaanan
Journal:  Nat Chem Biol       Date:  2008-01-06       Impact factor: 15.040

Review 9.  Sixty years of thiamin diphosphate biochemistry.

Authors:  A Schellenberger
Journal:  Biochim Biophys Acta       Date:  1998-06-29

10.  Tetrahedral intermediates in thiamin diphosphate-dependent decarboxylations exist as a 1',4'-imino tautomeric form of the coenzyme, unlike the michaelis complex or the free coenzyme.

Authors:  Natalia Nemeria; Ahmet Baykal; Ebenezer Joseph; Sheng Zhang; Yan Yan; William Furey; Frank Jordan
Journal:  Biochemistry       Date:  2004-06-01       Impact factor: 3.162

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  8 in total

1.  Glyoxylate carboligase: a unique thiamin diphosphate-dependent enzyme that can cycle between the 4'-aminopyrimidinium and 1',4'-iminopyrimidine tautomeric forms in the absence of the conserved glutamate.

Authors:  Natalia Nemeria; Elad Binshtein; Hetalben Patel; Anand Balakrishnan; Ilan Vered; Boaz Shaanan; Ze'ev Barak; David Chipman; Frank Jordan
Journal:  Biochemistry       Date:  2012-09-25       Impact factor: 3.162

2.  15N solid-state NMR as a probe of flavin H-bonding.

Authors:  Dongtao Cui; Ronald L Koder; P Leslie Dutton; Anne-Frances Miller
Journal:  J Phys Chem B       Date:  2011-05-27       Impact factor: 2.991

Review 3.  Experimental observation of thiamin diphosphate-bound intermediates on enzymes and mechanistic information derived from these observations.

Authors:  Frank Jordan; Natalia S Nemeria
Journal:  Bioorg Chem       Date:  2005-04-01       Impact factor: 5.275

4.  Electron density reactivity indexes of the tautomeric/ionization forms of thiamin diphosphate.

Authors:  Gonzalo A Jaña; Eduardo J Delgado
Journal:  J Mol Model       Date:  2013-06-23       Impact factor: 1.810

5.  Computer-assisted study on the reaction between pyruvate and ylide in the pathway leading to lactyl-ThDP.

Authors:  Omar Alvarado; Gonzalo Jaña; Eduardo J Delgado
Journal:  J Comput Aided Mol Des       Date:  2012-07-11       Impact factor: 3.686

6.  Solid-state nuclear magnetic resonance studies delineate the role of the protein in activation of both aromatic rings of thiamin.

Authors:  Anand Balakrishnan; Sivakumar Paramasivam; Sumit Chakraborty; Tatyana Polenova; Frank Jordan
Journal:  J Am Chem Soc       Date:  2011-12-09       Impact factor: 15.419

7.  Carbon-13 chemical-shift tensors in indigo: A two-dimensional NMR-ROCSA and DFT Study.

Authors:  Sean T Holmes; Cecil Dybowski
Journal:  Solid State Nucl Magn Reson       Date:  2015-09-03       Impact factor: 2.293

8.  A Theoretical Study of the Benzoylformate Decarboxylase Reaction Mechanism.

Authors:  Ferran Planas; Xiang Sheng; Michael J McLeish; Fahmi Himo
Journal:  Front Chem       Date:  2018-06-26       Impact factor: 5.221

  8 in total

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