Search filters

List of works by John P. Richard

A Marcus treatment of rate constants for protonation of ring-substituted alpha-methoxystyrenes: intrinsic reaction barriers and the shape of the reaction coordinate

scientific article published on 09 May 2007

A Paradigm for Enzyme-Catalyzed Proton Transfer at Carbon: Triosephosphate Isomerase ⬇️

scientific article published on March 20, 2012

A comparison of the electrophilic reactivities of Zn2+ and acetic acid as catalysts of enolization: imperatives for enzymatic catalysis of proton transfer at carbon

scientific article

A minimalist approach to understanding the efficiency of mononuclear Zn(ii) complexes as catalysts of cleavage of an RNA analog

article

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

scientific article published on 28 September 2017

A role for flexible loops in enzyme catalysis

scientific article published on 13 October 2010

A simple method to determine kinetic deuterium isotope effects provides evidence that proton transfer to carbon proceeds over and not through the reaction barrier

scientific article published on 4 August 2007

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

scientific article published on April 2008

A transition state analog for phosphate diester cleavage catalyzed by a small enzyme-like metal ion complex.

scientific article published on 16 April 2007

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

scientific article

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

scientific article published in November 2005

Alanine-dependent reactions of 5'-deoxypyridoxal in water

scientific article

Altered transition state for the reaction of an RNA model catalyzed by a dinuclear zinc(II) catalyst

scientific article

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

scientific article published on August 2009

Binding Energy and Catalysis by d -Xylose Isomerase: Kinetic, Product, and X-ray Crystallographic Analysis of Enzyme-Catalyzed Isomerization of ( R )-Glyceraldehyde

scientific article

Bovine serum albumin-catalyzed deprotonation of [1-(13)C]glycolaldehyde: protein reactivity toward deprotonation of the alpha-hydroxy alpha-carbonyl carbon

scientific article

Carbon acidity of the alpha-pyridinium carbon of a pyridoxamine analog.

scientific article published on 26 April 2005

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

scientific article published on 11 January 2013

Claisen-type addition of glycine to a pyridoxal iminium ion in water

scientific article

Claisen-type addition of glycine to pyridoxal in water.

scientific article

Conformational Changes in Orotidine 5′-Monophosphate Decarboxylase: A Structure-Based Explanation for How the 5′-Phosphate Group Activates the Enzyme

scientific article

Conformational Changes in Orotidine 5′-Monophosphate Decarboxylase: “Remote” Residues That Stabilize the Active Conformation

scientific article

Contribution of phosphate intrinsic binding energy to the enzymatic rate acceleration for triosephosphate isomerase

scientific article published in November 2001

Cooperativity between metal ions in the cleavage of phosphate diesters and RNA by dinuclear Zn(II) catalysts

scientific article published in December 2003

Covalent catalysis by pyridoxal: evaluation of the effect of the cofactor on the carbon acidity of glycine

scientific article published on 14 February 2007

Direct excitation luminescence spectroscopy of Eu(III) complexes of 1,4,7-tris(carbamoylmethyl)-1,4,7,10- tetraazacyclododecane derivatives and kinetic studies of their catalytic cleavage of an RNA analog

scientific article published on 31 August 2007

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

scientific article published on 04 July 2008

Dynamics for Reaction of an Ion Pair in Aqueous Solution:  Reactivity of Carboxylate Anions in Bimolecular Carbocation−Nucleophile Addition and Unimolecular Ion Pair Collapse

article

Dynamics for Reactions of Ion Pairs in Aqueous Solution: Reactivity of Tosylate Anion Ion Paired with the Highly Destabilized 1-(4-Methylphenyl)-2,2,2-Trifluoroethyl Carbocation

scientific article

Effect of an E461G mutation of beta-galactosidase (Escherichia coli, lac Z) on pL rate profiles and solvent deuterium isotope effects

scientific article published in June 2001

Enhancement of a Lewis Acid−Base Interaction via Solvation: Ammonia Molecules and the Benzene Radical Cation

scientific article published on 15 June 2007

Enzymatic Catalysis of Proton Transfer and Decarboxylation Reactions

scientific article

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

scientific article

Enzymatic rate enhancements: a review and perspective

scientific article

Enzyme Architecture: A Startling Role for Asn270 in Glycerol 3-Phosphate Dehydrogenase-Catalyzed Hydride Transfer

scientific article published on 29 February 2016

Enzyme Architecture: Amino Acid Side-Chains That Function To Optimize the Basicity of the Active Site Glutamate of Triosephosphate Isomerase

scholarly article by Xiang Zhai et al published 5 July 2018 in Journal of the American Chemical Society

Enzyme Architecture: Breaking Down the Catalytic Cage that Activates Orotidine 5'-Monophosphate Decarboxylase for Catalysis

scientific article published on 07 December 2018

Enzyme Architecture: Erection of Active Orotidine 5'-Monophosphate Decarboxylase by Substrate-Induced Conformational Changes

scientific article

Enzyme Architecture: Modeling the Operation of a Hydrophobic Clamp in Catalysis by Triosephosphate Isomerase

scientific article

Enzyme Architecture: Self-Assembly of Enzyme and Substrate Pieces of Glycerol-3-Phosphate Dehydrogenase into a Robust Catalyst of Hydride Transfer

scientific article published on 28 October 2016

Enzyme Architecture: The Effect of Replacement and Deletion Mutations of Loop 6 on Catalysis by Triosephosphate Isomerase

scientific article

Enzyme Architecture: The Role of a Flexible Loop in Activation of Glycerol-3-phosphate Dehydrogenase for Catalysis of Hydride Transfer

scientific article published on 16 January 2018

Enzyme activation through the utilization of intrinsic dianion binding energy.

scientific article published on 29 November 2016

Enzyme and coenzyme reaction mechanisms: Editorial overview

scientific article published on 01 December 2014

Enzyme architecture: deconstruction of the enzyme-activating phosphodianion interactions of orotidine 5'-monophosphate decarboxylase

scientific article

Enzyme architecture: on the importance of being in a protein cage

scientific article published on 31 March 2014

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

scientific article published on 21 April 2015

Enzyme architecture: remarkably similar transition states for triosephosphate isomerase-catalyzed reactions of the whole substrate and the substrate in pieces

scientific article published on 06 March 2014

Enzyme architecture: the activating oxydianion binding domain for orotidine 5'-monophophate decarboxylase

scientific article

Formation and Mechanism for Reactions of Ring-Substituted Phenonium Ions in Aqueous Solution

scientific article published on 30 November 2015

Formation and stability of N-heterocyclic carbenes in water: the carbon acid pKa of imidazolium cations in aqueous solution

scientific article published in April 2004

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

scientific article

Formation and stability of carbocations and carbanions in water and intrinsic barriers to their reactions.

scientific article

Formation and stability of enolates of acetamide and acetate anion: an Eigen plot for proton transfer at alpha-carbonyl carbon

scientific article published in March 2002

Formation and stability of mononuclear and dinuclear Eu(III) complexes and their catalytic reactivity toward cleavage of an RNA analog.

scientific article published on 27 July 2007

Formation and stability of organic zwitterions The carbon acid pKas of the trimethylsulfonium and tetramethylphosphonium cations in water

Formation and stability of peptide enolates in aqueous solution.

scientific article

Formation and stability of the 4-methoxyphenonium ion in aqueous solution

scientific article

Formation and stability of the enolates of N-protonated proline methyl ester and proline zwitterion in aqueous solution: a nonenzymatic model for the first step in the racemization of proline catalyzed by proline racemase

scientific article published in July 2003

Glycine enolates: the effect of formation of iminium ions to simple ketones on alpha-amino carbon acidity and a comparison with pyridoxal iminium ions

scientific article published on 17 January 2008

Glycine enolates: the large effect of iminium ion formation on alpha-amino carbon acidity

scientific article published in August 2001

Ground-state, transition-state, and metal-cation effects of the 2-hydroxyl group on beta-D-galactopyranosyl transfer catalyzed by beta-galactosidase (Escherichia coli, lac Z).

scientific article published in September 2005

Human Glycerol 3-Phosphate Dehydrogenase: X-ray Crystal Structures That Guide the Interpretation of Mutagenesis Studies

scientific article published on 31 January 2019

Hydride Transfer Catalyzed by Glycerol Phosphate Dehydrogenase: Recruitment of an Acidic Amino Acid Side Chain to Rescue a Damaged Enzyme

scientific article published on 11 December 2020

Hydrogen bonding and catalysis of solvolysis of 4-methoxybenzyl fluoride

scientific article published in August 2002

Hydron transfer catalyzed by triosephosphate isomerase. Products of isomerization of (R)-glyceraldehyde 3-phosphate in D2O.

scientific article

Hydron transfer catalyzed by triosephosphate isomerase. Products of isomerization of dihydroxyacetone phosphate in D2O.

scientific article

Hydron transfer catalyzed by triosephosphate isomerase. Products of the direct and phosphite-activated isomerization of [1-(13)C]-glycolaldehyde in D(2)O.

scientific article published on June 2009

Isopentenyl diphosphate isomerase catalyzed reactions in D2O: product release limits the rate of this sluggish enzyme-catalyzed reaction

scientific article published on 5 April 2012

Keto-enol/enolate equilibria in the N-acetylamino-p-methylacetophenone system. Effect of a beta-nitrogen substituent.

scientific article

Ketonization of the remarkably strongly acidic elongated enol generated by flash photolytic decarboxylation of p-benzoylphenylacetic acid in aqueous solution

scientific article published on 27 July 2005

Kinetic and thermodynamic barriers to carbon and oxygen alkylation of phenol and phenoxide ion by the 1-(4-methoxyphenyl)ethyl carbocation

scientific article

Magnitude and origin of the enhanced basicity of the catalytic glutamate of triosephosphate isomerase

scientific article published on 10 April 2013

Mechanism for activation of triosephosphate isomerase by phosphite dianion: the role of a hydrophobic clamp

scientific article

Mechanism for activation of triosephosphate isomerase by phosphite dianion: the role of a ligand-driven conformational change

scientific article

Mechanism of the Orotidine 5′-Monophosphate Decarboxylase-Catalyzed Reaction: Evidence for Substrate Destabilization ,

scientific article

Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: effect of solvent viscosity on kinetic constants

scientific article published on June 2009

Mechanisms Complex biological processes and their central chemical events

scientific article published on 01 October 2003

Mechanistic Imperatives for Deprotonation of Carbon Catalyzed by Triosephosphate Isomerase: Enzyme-Activation by Phosphite Dianion

scientific article published on April 2014

OMP decarboxylase: phosphodianion binding energy is used to stabilize a vinyl carbanion intermediate

scientific article

On the importance of being zwitterionic: enzymatic catalysis of decarboxylation and deprotonation of cationic carbon

scientific article

Origin of Free Energy Barriers of Decarboxylation and the Reverse Process of CO<sub>2</sub> Capture in Dimethylformamide and in Water

scientific article published on 29 December 2020

Orotidine 5'-Monophosphate Decarboxylase: Probing the Limits of the Possible for Enzyme Catalysis

scientific article published on 29 March 2018

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

scientific article

Phosphate binding energy and catalysis by small and large molecules

scientific article

Physical and kinetic analysis of the cooperative role of metal ions in catalysis of phosphodiester cleavage by a dinuclear Zn(II) complex

scientific article

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

scientific article published on 23 August 2017

Primary Deuterium Kinetic Isotope Effects: A Probe for the Origin of the Rate Acceleration for Hydride Transfer Catalyzed by Glycerol-3-Phosphate Dehydrogenase

scientific article published in 2018

Product deuterium isotope effect for orotidine 5'-monophosphate decarboxylase: evidence for the existence of a short-lived carbanion intermediate

scientific article

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

scientific article

Protein Flexibility and Stiffness Enable Efficient Enzymatic Catalysis

scientific article published on 14 February 2019

Proton transfer at carbon.

scientific article

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

scientific article (publication date: 5 September 2012)

Punching holes in an enzyme

scientific article published in September 2009

Pyridoxal 5'-phosphate: electrophilic catalyst extraordinaire

scientific article published on 27 July 2009

Rate and Equilibrium Constants for an Enzyme Conformational Change during Catalysis by Orotidine 5'-Monophosphate Decarboxylase

scientific article published on 14 July 2015

Rational design of transition-state analogues as potent enzyme inhibitors with therapeutic applications

scientific article

Reactions of ion-pair intermediates of solvolysis

scientific article published in January 2005

Reflections on the catalytic power of a TIM-barrel.

scientific article

Rescue of K12G triosephosphate isomerase by ammonium cations: the reaction of an enzyme in pieces

scientific article

Restoring a metabolic pathway

scientific article

Role of Ligand-Driven Conformational Changes in Enzyme Catalysis: Modeling the Reactivity of the Catalytic Cage of Triosephosphate Isomerase

scientific article published on 8 March 2018

Role of Loop-Clamping Side Chains in Catalysis by Triosephosphate Isomerase

scientific article

Role of Lys-12 in catalysis by triosephosphate isomerase: a two-part substrate approach

scientific article

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

scientific article published on 08 October 2013

Role of the Carboxylate in Enzyme-Catalyzed Decarboxylation of Orotidine 5'-Monophosphate: Transition State Stabilization Dominates Over Ground State Destabilization

scientific article published on 14 August 2019

Scrambling of Oxygen-18 during the “Borderline” Solvolysis of 1-(3-Nitrophenyl)ethyl Tosylate

scientific article published on 01 September 2004

Slow proton transfer from the hydrogen-labelled carboxylic acid side chain (Glu-165) of triosephosphate isomerase to imidazole buffer in D2O.

scientific article

Solvent deuterium isotope effects on phosphodiester cleavage catalyzed by an extraordinarily active Zn(II) complex

scientific article published in February 2005

Specificity in transition state binding: the Pauling model revisited

scientific article published on 04 February 2013

Stereochemical course of a phosphokinase using a chiral [18O]phosphorothioate. Comparison with the transfer of a chiral [16O,17O,18O] phosphoryl group

scientific article published on 01 January 1980

Structural mutations that probe the interactions between the catalytic and dianion activation sites of triosephosphate isomerase

scientific article published on 16 August 2013

Structure-Function Studies of Hydrophobic Residues That Clamp a Basic Glutamate Side Chain during Catalysis by Triosephosphate Isomerase

scientific article published on 05 May 2016

Structure-Reactivity Effects on Intrinsic Primary Kinetic Isotope Effects for Hydride Transfer Catalyzed by Glycerol-3-phosphate Dehydrogenase

scientific article published on 21 October 2016

Structure-Reactivity Relationships for β-Galactosidase (Escherichia coli, lac Z): A Second Derivative Effect on β(nuc) for Addition of Alkyl Alcohols to an Oxocarbenium Ion Reaction Intermediate

scientific article published on July 2008

Structure-activity studies on the cleavage of an RNA analogue by a potent dinuclear metal ion catalyst: effect of changing the metal ion.

scientific article published in March 2004

Structure-reactivity effects on primary deuterium isotope effects on protonation of ring-substituted alpha-methoxystyrenes

scientific article

Structure-reactivity relationships for beta-galactosidase (Escherichia coli, lac Z). 3. Evidence that Glu-461 participates in Brønsted acid-base catalysis of beta-D-galactopyranosyl group transfer.

scientific article

Structure-reactivity relationships for beta-galactosidase (Escherichia coli, lac Z). 4. Mechanism for reaction of nucleophiles with the galactosyl-enzyme intermediates of E461G and E461Q beta-galactosidases.

scientific article

Substituent Effects on Carbon Acidity in Aqueous Solution and at Enzyme Active Sites

scientific article

Substituent Effects on the Formation and Nucleophile Selectivity of Ring-Substituted Phenonium Ions in Aqueous Solution

scientific article

Substituent effects on carbocation stability: the pK(R) for p-quinone methide

scientific article

Substituent effects on electrophilic catalysis by the carbonyl group: anatomy of the rate acceleration for PLP-catalyzed deprotonation of glycine.

scientific article

Substituent effects on the thermodynamic stability of imines formed from glycine and aromatic aldehydes: implications for the catalytic activity of pyridoxal-5'-phosphate.

scientific article

Substrate specificity of an active dinuclear Zn(II) catalyst for cleavage of RNA analogues and a dinucleoside

scientific article published in February 2006

Swain-Scott Relationships for Nucleophile Addition to Ring-Substituted Phenonium Ions

scientific article

The Enhancement of Enzymatic Rate Accelerations by Brønsted Acid−Base Catalysis ⬇️

scientific article published on March 31, 1998

The Generation and Reactions of Quinone Methides

scientific article published on January 2011

The Organization of Active Site Side Chains of Glycerol-3-phosphate Dehydrogenase Promotes Efficient Enzyme Catalysis and Rescue of Variant Enzymes

scientific article published on 13 April 2020

The PLP cofactor: lessons from studies on model reactions.

scientific article published on 20 December 2010

The activating oxydianion binding domain for enzyme-catalyzed proton transfer, hydride transfer, and decarboxylation: specificity and enzyme architecture

scientific article

The mandelamide keto-enol system in aqueous solution. Generation of the enol by hydration of phenylcarbamoylcarbene

scientific article

The role of ligand-gated conformational changes in enzyme catalysis

scientific article published on 01 October 2019

The stereochemical course of thiophosphoryl group transfer catalyzed by adenosine kinase

scientific article published on 01 June 1980

Theoretical analysis of kinetic isotope effects on proton transfer reactions between substituted alpha-methoxystyrenes and substituted acetic acids

scientific article published on October 2009

Uncovering the Role of Key Active-Site Side Chains in Catalysis: An Extended Brønsted Relationship for Substrate Deprotonation Catalyzed by Wild-Type and Variants of Triosephosphate Isomerase

scientific article published on 25 September 2019

What is the stabilizing interaction with nucleophilic solvents in the transition state for solvolysis of tertiary derivatives: nucleophilic solvent participation or nucleophilic solvation?

scientific article published on July 2001

When does an intermediate become a transition state? Degenerate isomerization without competing racemization during solvolysis of (S)-1-(3-nitrophenyl)ethyl tosylate

scientific article

Wildtype and engineered monomeric triosephosphate isomerase from Trypanosoma brucei: partitioning of reaction intermediates in D2O and activation by phosphite dianion

scientific article

[14] Stereochemistry of selected phosphotransferases and nucleotidyltransferases

scientific article published on 01 January 1982

Paulina is supported by:

About Paulina

Help