Literature DB >> 20050635

Activation of R235A mutant orotidine 5'-monophosphate decarboxylase by the guanidinium cation: effective molarity of the cationic side chain of Arg-235.

Shonoi A Barnett1, Tina L Amyes, B McKay Wood, John A Gerlt, John P Richard.   

Abstract

The R235A mutation at yeast orotidine 5'-monophosphate decarboxylase (OMPDC) results in a 1300-fold increase in K(m) and a 14-fold decrease in k(cat) for decarboxylation of orotidine 5'-monophosphate, corresponding to a 5.8 kcal/mol destabilization of the transition state. There is strong activation of this mutant enzyme by added guanidinium cation (Gua(+)): 1 M Gua(+) stabilizes the transition state by ca. 3 kcal/mol. This stabilization is due to the binding of Gua(+) to the binary E(mut) x OMP complex, with a K(d) of 50 mM, to form the 9-fold more reactive ternary E(mut) x OMP x Gua(+) complex. The "effective molarity" of the cationic side chain of Arg-235 at the wild-type enzyme is calculated to be 160 M.

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Year:  2010        PMID: 20050635      PMCID: PMC2819103          DOI: 10.1021/bi902174q

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


  11 in total

1.  Anatomy of a proficient enzyme: the structure of orotidine 5'-monophosphate decarboxylase in the presence and absence of a potential transition state analog.

Authors:  B G Miller; A M Hassell; R Wolfenden; M V Milburn; S A Short
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-29       Impact factor: 11.205

2.  Formation and stability of a vinyl carbanion at the active site of orotidine 5'-monophosphate decarboxylase: pKa of the C-6 proton of enzyme-bound UMP.

Authors:  Tina L Amyes; Bryant M Wood; Kui Chan; John A Gerlt; John P Richard
Journal:  J Am Chem Soc       Date:  2008-01-11       Impact factor: 15.419

3.  Dissecting the total transition state stabilization provided by amino acid side chains at orotidine 5'-monophosphate decarboxylase: a two-part substrate approach.

Authors:  Shonoi A Barnett; Tina L Amyes; Bryant M Wood; John A Gerlt; John P Richard
Journal:  Biochemistry       Date:  2008-07-04       Impact factor: 3.162

4.  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

5.  Contribution of enzyme-phosphoribosyl contacts to catalysis by orotidine 5'-phosphate decarboxylase.

Authors:  B G Miller; M J Snider; S A Short; R Wolfenden
Journal:  Biochemistry       Date:  2000-07-18       Impact factor: 3.162

Review 6.  Catalytic proficiency: the unusual case of OMP decarboxylase.

Authors:  Brian G Miller; Richard Wolfenden
Journal:  Annu Rev Biochem       Date:  2001-11-09       Impact factor: 23.643

7.  An examination of the relationship between active site loop size and thermodynamic activation parameters for orotidine 5'-monophosphate decarboxylase from mesophilic and thermophilic organisms.

Authors:  Krisztina Toth; Tina L Amyes; B McKay Wood; Kui K Chan; John A Gerlt; John P Richard
Journal:  Biochemistry       Date:  2009-08-25       Impact factor: 3.162

8.  Guanidine derivatives restore activity to carboxypeptidase lacking arginine-127.

Authors:  M A Phillips; L Hedstrom; W J Rutter
Journal:  Protein Sci       Date:  1992-04       Impact factor: 6.725

9.  A substrate in pieces: allosteric activation of glycerol 3-phosphate dehydrogenase (NAD+) by phosphite dianion.

Authors:  Wing-Yin Tsang; Tina L Amyes; John P Richard
Journal:  Biochemistry       Date:  2008-04-01       Impact factor: 3.162

10.  Enzymatic catalysis of proton transfer at carbon: activation of triosephosphate isomerase by phosphite dianion.

Authors:  Tina L Amyes; John P Richard
Journal:  Biochemistry       Date:  2007-04-20       Impact factor: 3.162

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  29 in total

1.  Orotidine 5'-monophosphate decarboxylase: transition state stabilization from remote protein-phosphodianion interactions.

Authors:  Tina L Amyes; Shonoi A Ming; Lawrence M Goldman; B McKay Wood; Bijoy J Desai; John A Gerlt; John P Richard
Journal:  Biochemistry       Date:  2012-05-31       Impact factor: 3.162

2.  Product deuterium isotope effects for orotidine 5'-monophosphate decarboxylase: effect of changing substrate and enzyme structure on the partitioning of the vinyl carbanion reaction intermediate.

Authors:  Krisztina Toth; Tina L Amyes; Bryant M Wood; Kui Chan; John A Gerlt; John P Richard
Journal:  J Am Chem Soc       Date:  2010-05-26       Impact factor: 15.419

3.  The use of reaction timecourses to determine the level of minor contaminants in enzyme preparations.

Authors:  Lawrence M Goldman; Tina L Amyes
Journal:  Anal Biochem       Date:  2014-01-03       Impact factor: 3.365

4.  Modification of residue 42 of the active site loop with a lysine-mimetic side chain rescues isochorismate-pyruvate lyase activity in Pseudomonas aeruginosa PchB.

Authors:  José Olucha; Kathleen M Meneely; Audrey L Lamb
Journal:  Biochemistry       Date:  2012-09-12       Impact factor: 3.162

5.  Catalysis by orotidine 5'-monophosphate decarboxylase: effect of 5-fluoro and 4'-substituents on the decarboxylation of two-part substrates.

Authors:  Bogdana Goryanova; Krisztina Spong; Tina L Amyes; John P Richard
Journal:  Biochemistry       Date:  2013-01-11       Impact factor: 3.162

6.  Primary Deuterium Kinetic Isotope Effects From Product Yields: Rationale, Implementation, and Interpretation.

Authors:  Tina L Amyes; John P Richard
Journal:  Methods Enzymol       Date:  2017-08-23       Impact factor: 1.600

7.  Role of a guanidinium cation-phosphodianion pair in stabilizing the vinyl carbanion intermediate of orotidine 5'-phosphate decarboxylase-catalyzed reactions.

Authors:  Bogdana Goryanova; Lawrence M Goldman; Tina L Amyes; John A Gerlt; John P Richard
Journal:  Biochemistry       Date:  2013-10-08       Impact factor: 3.162

Review 8.  A reevaluation of the origin of the rate acceleration for enzyme-catalyzed hydride transfer.

Authors:  Archie C Reyes; Tina L Amyes; John P Richard
Journal:  Org Biomol Chem       Date:  2017-10-31       Impact factor: 3.876

9.  Substrate distortion contributes to the catalysis of orotidine 5'-monophosphate decarboxylase.

Authors:  Masahiro Fujihashi; Toyokazu Ishida; Shingo Kuroda; Lakshmi P Kotra; Emil F Pai; Kunio Miki
Journal:  J Am Chem Soc       Date:  2013-11-11       Impact factor: 15.419

Review 10.  Enzyme activation through the utilization of intrinsic dianion binding energy.

Authors:  T L Amyes; M M Malabanan; X Zhai; A C Reyes; J P Richard
Journal:  Protein Eng Des Sel       Date:  2017-03-01       Impact factor: 1.650

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