Literature DB >> 7809611

A proficient enzyme.

A Radzicka1, R Wolfenden.   

Abstract

Orotic acid is decarboxylated with a half-time (t1/2) of 78 million years in neutral aqueous solution at room temperature, as indicated by reactions in quartz tubes at elevated temperatures. Spontaneous hydrolysis of phosphodiester bonds, such as those present in the backbone of DNA, proceeds even more slowly at high temperatures, but the heat of activation is less positive, so that dimethyl phosphate is hydrolyzed with a t1/2 of 130,000 years in neutral solution at room temperature. These values extend the known range of spontaneous rate constants for reactions that are also susceptible to catalysis by enzymes to more than 14 orders of magnitude. Values of the second-order rate constant kcat/Km for the corresponding enzyme reactions are confined to a range of only 600-fold, in contrast. Orotidine 5'-phosphate decarboxylase, an extremely proficient enzyme, enhances the rate of reaction by a factor of 10(17) and is estimated to bind the altered substrate in the transition state with a dissociation constant of less than 5 x 10(-24) M.

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Year:  1995        PMID: 7809611     DOI: 10.1126/science.7809611

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  170 in total

1.  Electrostatic stress in catalysis: structure and mechanism of the enzyme orotidine monophosphate decarboxylase.

Authors:  N Wu; Y Mo; J Gao; E F Pai
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-29       Impact factor: 11.205

2.  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

3.  The crystal structure and mechanism of orotidine 5'-monophosphate decarboxylase.

Authors:  T C Appleby; C Kinsland; T P Begley; S E Ealick
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-29       Impact factor: 11.205

4.  Convenient synthesis of N1-substituted orotic acid derivatives.

Authors:  Jeannette T Bowler; Caitlin R Clausen; Daniel J Blackburn; Weiming Wu
Journal:  Tetrahedron Lett       Date:  2014-11-19       Impact factor: 2.415

5.  Preparation of DNA containing 5-hydroxymethyl-2'-deoxycytidine modification through phosphoramidites with TBDMS as 5-hydroxymethyl protecting group.

Authors:  Qing Dai; Chuan He
Journal:  Curr Protoc Nucleic Acid Chem       Date:  2011-12

6.  A common speed limit for RNA-cleaving ribozymes and deoxyribozymes.

Authors:  Ronald R Breaker; Gail Mitchell Emilsson; Denis Lazarev; Shingo Nakamura; Izabela J Puskarz; Adam Roth; Narasimhan Sudarsan
Journal:  RNA       Date:  2003-08       Impact factor: 4.942

7.  Evidence for 'lock and key' character in an anti-phosphonate hydrolytic antibody catalytic site augmented by non-reaction centre recognition: variation in substrate selectivity between an anti-phosphonate antibody, an anti-phosphate antibody and two hydrolytic enzymes.

Authors:  Sanjiv Sonkaria; Guillaume Boucher; José Flórez-Olvarez; Bilal Said; Syeed Hussain; Elizabeth L Ostler; Sheraz Gul; Emrys W Thomas; Marina Resmini; Gerard Gallacher; Keith Brocklehurst
Journal:  Biochem J       Date:  2004-07-01       Impact factor: 3.857

8.  Structural characterization of the molecular events during a slow substrate-product transition in orotidine 5'-monophosphate decarboxylase.

Authors:  Masahiro Fujihashi; Lianhu Wei; Lakshmi P Kotra; Emil F Pai
Journal:  J Mol Biol       Date:  2009-02-21       Impact factor: 5.469

9.  Biophysical Characterization of a Disabled Double Mutant of Soybean Lipoxygenase: The "Undoing" of Precise Substrate Positioning Relative to Metal Cofactor and an Identified Dynamical Network.

Authors:  Shenshen Hu; Adam R Offenbacher; Erin M Thompson; Christine L Gee; Jarett Wilcoxen; Cody A M Carr; Daniil M Prigozhin; Vanessa Yang; Tom Alber; R David Britt; James S Fraser; Judith P Klinman
Journal:  J Am Chem Soc       Date:  2019-01-15       Impact factor: 15.419

Review 10.  Specificity in transition state binding: the Pauling model revisited.

Authors:  Tina L Amyes; John P Richard
Journal:  Biochemistry       Date:  2013-02-04       Impact factor: 3.162

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