Literature DB >> 15668182

The effective molarity of the substrate phosphoryl group in the transition state for yeast OMP decarboxylase.

Annette Sievers1, Richard Wolfenden.   

Abstract

The second order rate constant (k(cat)/K(m)) for decarboxylation of orotidine by yeast OMP decarboxylase (ODCase), measured by trapping (14)CO(2) released during the reaction, is 2 x 10(-4)M(-1)s(-1). This very low activity may be compared with a value of 3 x 10(7)M(-1)s(-1) for the action of yeast OMP decarboxylase on the normal substrate OMP. Both activities are strongly inhibited by 6-hydroxy UMP (BMP), and abrogated by mutation of Asp-96 to alanine. These results, in conjunction with the binding affinity of inorganic phosphate as a competitive inhibitor (K(i)=7 x 10(-4)M), imply an effective concentration of 1.1 x 10(9)M for the substrate phosphoryl group in stabilizing the transition state for enzymatic decarboxylation of OMP. The observed difference in rate (1.5 x 10(11)-fold) is the largest effect of a simple substituent that appears to have been reported for an enzyme reaction.

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Year:  2005        PMID: 15668182     DOI: 10.1016/j.bioorg.2004.08.005

Source DB:  PubMed          Journal:  Bioorg Chem        ISSN: 0045-2068            Impact factor:   5.275


  19 in total

1.  Indiscriminate binding by orotidine 5'-phosphate decarboxylase of uridine 5'-phosphate derivatives with bulky anionic c6 substituents.

Authors:  Charles A Lewis; Richard Wolfenden
Journal:  Biochemistry       Date:  2007-10-30       Impact factor: 3.162

2.  Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: evidence for substrate destabilization.

Authors:  Kui K Chan; B McKay Wood; Alexander A Fedorov; Elena V Fedorov; Heidi J Imker; Tina L Amyes; John P Richard; Steven C Almo; John A Gerlt
Journal:  Biochemistry       Date:  2009-06-23       Impact factor: 3.162

3.  Functional and structural roles of the Cys14-Cys38 disulfide of bovine pancreatic trypsin inhibitor.

Authors:  Elena Zakharova; Martin P Horvath; David P Goldenberg
Journal:  J Mol Biol       Date:  2008-07-30       Impact factor: 5.469

4.  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

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.  Proton transfer from C-6 of uridine 5'-monophosphate catalyzed by orotidine 5'-monophosphate decarboxylase: formation and stability of a vinyl carbanion intermediate and the effect of a 5-fluoro substituent.

Authors:  Wing-Yin Tsang; B McKay Wood; Freeman M Wong; Weiming Wu; John A Gerlt; Tina L Amyes; John P Richard
Journal:  J Am Chem Soc       Date:  2012-08-21       Impact factor: 15.419

7.  Conformational changes in orotidine 5'-monophosphate decarboxylase: "remote" residues that stabilize the active conformation.

Authors:  B McKay Wood; Tina L Amyes; Alexander A Fedorov; Elena V Fedorov; Andrew Shabila; Steven C Almo; John P Richard; John A Gerlt
Journal:  Biochemistry       Date:  2010-05-04       Impact factor: 3.162

8.  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

9.  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

10.  Catalysis in Enzymatic Decarboxylations: Comparison of Selected Cofactor-dependent and Cofactor-independent Examples.

Authors:  Frank Jordan; Hetalben Patel
Journal:  ACS Catal       Date:  2013-07-05       Impact factor: 13.084

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