Published in Biochemistry on October 08, 2013
Enzyme architecture: remarkably similar transition states for triosephosphate isomerase-catalyzed reactions of the whole substrate and the substrate in pieces. J Am Chem Soc (2014) 0.92
Enzyme architecture: deconstruction of the enzyme-activating phosphodianion interactions of orotidine 5'-monophosphate decarboxylase. J Am Chem Soc (2014) 0.87
The activating oxydianion binding domain for enzyme-catalyzed proton transfer, hydride transfer, and decarboxylation: specificity and enzyme architecture. J Am Chem Soc (2015) 0.86
Enzyme architecture: the activating oxydianion binding domain for orotidine 5'-monophophate decarboxylase. J Am Chem Soc (2013) 0.84
Role of Loop-Clamping Side Chains in Catalysis by Triosephosphate Isomerase. J Am Chem Soc (2015) 0.82
Rate and Equilibrium Constants for an Enzyme Conformational Change during Catalysis by Orotidine 5'-Monophosphate Decarboxylase. Biochemistry (2015) 0.76
Enzyme Architecture: Self-Assembly of Enzyme and Substrate Pieces of Glycerol-3-Phosphate Dehydrogenase into a Robust Catalyst of Hydride Transfer. J Am Chem Soc (2016) 0.75
Enzyme Architecture: A Startling Role for Asn270 in Glycerol 3-Phosphate Dehydrogenase-Catalyzed Hydride Transfer. Biochemistry (2016) 0.75
Substituent Effects on Carbon Acidity in Aqueous Solution and at Enzyme Active Sites. Synlett (2017) 0.75
Enzyme Architecture: Modeling the Operation of a Hydrophobic Clamp in Catalysis by Triosephosphate Isomerase. J Am Chem Soc (2017) 0.75
ExPASy: The proteomics server for in-depth protein knowledge and analysis. Nucleic Acids Res (2003) 17.39
Entropic contributions to rate accelerations in enzymic and intramolecular reactions and the chelate effect. Proc Natl Acad Sci U S A (1971) 5.46
A proficient enzyme. Science (1995) 5.02
On the attribution and additivity of binding energies. Proc Natl Acad Sci U S A (1981) 4.44
Strategy for analysing the co-operativity of intramolecular interactions in peptides and proteins. J Mol Biol (1990) 3.40
Anatomy of a proficient enzyme: the structure of orotidine 5'-monophosphate decarboxylase in the presence and absence of a potential transition state analog. Proc Natl Acad Sci U S A (2000) 2.61
Electrostatic origin of the catalytic power of enzymes and the role of preorganized active sites. J Biol Chem (1998) 2.58
Activation of orotidine 5'-monophosphate decarboxylase by phosphite dianion: the whole substrate is the sum of two parts. J Am Chem Soc (2005) 2.06
A proficient enzyme revisited: the predicted mechanism for orotidine monophosphate decarboxylase. Science (1997) 1.99
The crystal structure and mechanism of orotidine 5'-monophosphate decarboxylase. Proc Natl Acad Sci U S A (2000) 1.90
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. J Am Chem Soc (2008) 1.85
Mechanism of decarboxylation of 1,3-dimethylorotic acid. A model for orotidine 5'-phosphate decarboxylase. J Am Chem Soc (1976) 1.80
Enzymatic catalysis of proton transfer at carbon: activation of triosephosphate isomerase by phosphite dianion. Biochemistry (2007) 1.72
A role for flexible loops in enzyme catalysis. Curr Opin Struct Biol (2010) 1.62
Solvation, reorganization energy, and biological catalysis. J Biol Chem (1998) 1.62
Effective charge on acetylcholinesterase active sites determined from the ionic strength dependence of association rate constants with cationic ligands. Biochemistry (1980) 1.57
Product deuterium isotope effect for orotidine 5'-monophosphate decarboxylase: evidence for the existence of a short-lived carbanion intermediate. J Am Chem Soc (2007) 1.56
Optimal alignment for enzymatic proton transfer: structure of the Michaelis complex of triosephosphate isomerase at 1.2-A resolution. Proc Natl Acad Sci U S A (2002) 1.53
A substrate in pieces: allosteric activation of glycerol 3-phosphate dehydrogenase (NAD+) by phosphite dianion. Biochemistry (2008) 1.51
Equilibrium of formation of the 6-carbanion of UMP, a potential intermediate in the action of OMP decarboxylase. J Am Chem Soc (2002) 1.50
Dissecting the total transition state stabilization provided by amino acid side chains at orotidine 5'-monophosphate decarboxylase: a two-part substrate approach. Biochemistry (2008) 1.45
Cloning and characterization of the prs gene encoding phosphoribosylpyrophosphate synthetase of Escherichia coli. Mol Gen Genet (1985) 1.44
Yeast orotidine-5'-phosphate decarboxylase: steady-state and pre-steady-state analysis of the kinetic mechanism of substrate decarboxylation. Biochemistry (2000) 1.40
Contribution of phosphate intrinsic binding energy to the enzymatic rate acceleration for triosephosphate isomerase. J Am Chem Soc (2001) 1.40
Stability of the 6-carbanion of uracil analogues: mechanistic implications for model reactions of orotidine-5'-monophosphate decarboxylase. Org Lett (2006) 1.39
Inhibition of orotidine-5'-phosphate decarboxylase by 1-(5'-phospho-beta-d-ribofuranosyl)barbituric acid, 6-azauridine 5'-phosphate, and uridine 5'-phosphate. Biochemistry (1980) 1.37
Hydron transfer catalyzed by triosephosphate isomerase. Products of the direct and phosphite-activated isomerization of [1-(13)C]-glycolaldehyde in D(2)O. Biochemistry (2009) 1.33
Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: evidence for substrate destabilization. Biochemistry (2009) 1.27
Crystal structure of triosephosphate isomerase complexed with 2-phosphoglycolate at 0.83-A resolution. J Biol Chem (2003) 1.25
Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: effect of solvent viscosity on kinetic constants. Biochemistry (2009) 1.22
Contribution of enzyme-phosphoribosyl contacts to catalysis by orotidine 5'-phosphate decarboxylase. Biochemistry (2000) 1.21
Specificity in transition state binding: the Pauling model revisited. Biochemistry (2013) 1.19
An examination of the relationship between active site loop size and thermodynamic activation parameters for orotidine 5'-monophosphate decarboxylase from mesophilic and thermophilic organisms. Biochemistry (2009) 1.18
Activation of R235A mutant orotidine 5'-monophosphate decarboxylase by the guanidinium cation: effective molarity of the cationic side chain of Arg-235. Biochemistry (2010) 1.17
A paradigm for enzyme-catalyzed proton transfer at carbon: triosephosphate isomerase. Biochemistry (2012) 1.15
Carbon isotope effect study on orotidine 5'-monophosphate decarboxylase: support for an anionic intermediate. Biochemistry (2007) 1.14
Orotidine 5'-monophosphate decarboxylase: transition state stabilization from remote protein-phosphodianion interactions. Biochemistry (2012) 1.12
Crystal structures of orotidine monophosphate decarboxylase: does the structure reveal the mechanism of nature's most proficient enzyme? Chembiochem (2001) 1.11
OMP decarboxylase: phosphodianion binding energy is used to stabilize a vinyl carbanion intermediate. J Am Chem Soc (2011) 1.10
The enhancement of enzymatic rate accelerations by Brønsted acid-base catalysis. Biochemistry (1998) 1.05
Orotidylate decarboxylase: insights into the catalytic mechanism from substrate specificity studies. Biochemistry (1992) 1.04
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. J Am Chem Soc (2010) 1.03
Kinetic mechanism of orotate phosphoribosyltransferase from Salmonella typhimurium. Biochemistry (1990) 1.02
Characterization of the Escherichia coli prsA1-encoded mutant phosphoribosylpyrophosphate synthetase identifies a divalent cation-nucleotide binding site. J Biol Chem (1989) 1.01
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. J Am Chem Soc (2012) 0.99
The influence of pH on the interaction of inhibitors with triosephosphate isomerase and determination of the pKa of the active-site carboxyl group. Biochemistry (1975) 0.98
Mechanism for activation of triosephosphate isomerase by phosphite dianion: the role of a hydrophobic clamp. J Am Chem Soc (2012) 0.97
An alternative explanation for the catalytic proficiency of orotidine 5'-phosphate decarboxylase. J Am Chem Soc (2001) 0.95
Magnitude and origin of the enhanced basicity of the catalytic glutamate of triosephosphate isomerase. J Am Chem Soc (2013) 0.94
Structural mutations that probe the interactions between the catalytic and dianion activation sites of triosephosphate isomerase. Biochemistry (2013) 0.90
Catalysis by orotidine 5'-monophosphate decarboxylase: effect of 5-fluoro and 4'-substituents on the decarboxylation of two-part substrates. Biochemistry (2013) 0.86
Quantification of the effect of conformational restriction on supramolecular effective molarities. J Am Chem Soc (2013) 0.85
Evolution of enzyme superfamilies. Curr Opin Chem Biol (2006) 2.30
Prediction and assignment of function for a divergent N-succinyl amino acid racemase. Nat Chem Biol (2007) 2.29
Evolution of enzymatic activities in the enolase superfamily: L-fuconate dehydratase from Xanthomonas campestris. Biochemistry (2006) 2.15
Activation of orotidine 5'-monophosphate decarboxylase by phosphite dianion: the whole substrate is the sum of two parts. J Am Chem Soc (2005) 2.06
Discovery of a dipeptide epimerase enzymatic function guided by homology modeling and virtual screening. Structure (2008) 1.91
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. J Am Chem Soc (2008) 1.85
Enzymatic catalysis of proton transfer at carbon: activation of triosephosphate isomerase by phosphite dianion. Biochemistry (2007) 1.72
A role for flexible loops in enzyme catalysis. Curr Opin Struct Biol (2010) 1.62
Enzymatic and structural characterization of rTSγ provides insights into the function of rTSβ. Biochemistry (2014) 1.57
Product deuterium isotope effect for orotidine 5'-monophosphate decarboxylase: evidence for the existence of a short-lived carbanion intermediate. J Am Chem Soc (2007) 1.56
A gold standard set of mechanistically diverse enzyme superfamilies. Genome Biol (2006) 1.52
A substrate in pieces: allosteric activation of glycerol 3-phosphate dehydrogenase (NAD+) by phosphite dianion. Biochemistry (2008) 1.51
Formation and stability of enolates of acetamide and acetate anion: an Eigen plot for proton transfer at alpha-carbonyl carbon. J Am Chem Soc (2002) 1.50
Discovery of new enzymes and metabolic pathways by using structure and genome context. Nature (2013) 1.46
Dissecting the total transition state stabilization provided by amino acid side chains at orotidine 5'-monophosphate decarboxylase: a two-part substrate approach. Biochemistry (2008) 1.45
Substituent effects on carbocation stability: the pK(R) for p-quinone methide. J Am Chem Soc (2003) 1.44
Evolutionary potential of (beta/alpha)8-barrels: functional promiscuity produced by single substitutions in the enolase superfamily. Biochemistry (2003) 1.36
On the importance of being zwitterionic: enzymatic catalysis of decarboxylation and deprotonation of cationic carbon. Bioorg Chem (2004) 1.36
Hydron transfer catalyzed by triosephosphate isomerase. Products of the direct and phosphite-activated isomerization of [1-(13)C]-glycolaldehyde in D(2)O. Biochemistry (2009) 1.33
Evolution of structure and function in the o-succinylbenzoate synthase/N-acylamino acid racemase family of the enolase superfamily. J Mol Biol (2006) 1.31
Utilization of L-ascorbate by Escherichia coli K-12: assignments of functions to products of the yjf-sga and yia-sgb operons. J Bacteriol (2002) 1.31
Hydron transfer catalyzed by triosephosphate isomerase. Products of isomerization of (R)-glyceraldehyde 3-phosphate in D2O. Biochemistry (2005) 1.30
Phosphate binding energy and catalysis by small and large molecules. Acc Chem Res (2008) 1.30
Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: evidence for substrate destabilization. Biochemistry (2009) 1.27
Hydron transfer catalyzed by triosephosphate isomerase. Products of isomerization of dihydroxyacetone phosphate in D2O. Biochemistry (2005) 1.23
Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: effect of solvent viscosity on kinetic constants. Biochemistry (2009) 1.22
Formation and stability of peptide enolates in aqueous solution. J Am Chem Soc (2002) 1.22
Evolutionary potential of (beta/alpha)8-barrels: in vitro enhancement of a "new" reaction in the enolase superfamily. Biochemistry (2005) 1.21
Specificity in transition state binding: the Pauling model revisited. Biochemistry (2013) 1.19
Mechanistic diversity in the RuBisCO superfamily: a novel isomerization reaction catalyzed by the RuBisCO-like protein from Rhodospirillum rubrum. Biochemistry (2008) 1.18
An examination of the relationship between active site loop size and thermodynamic activation parameters for orotidine 5'-monophosphate decarboxylase from mesophilic and thermophilic organisms. Biochemistry (2009) 1.18
Role of Lys-12 in catalysis by triosephosphate isomerase: a two-part substrate approach. Biochemistry (2010) 1.18
Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily. Proc Natl Acad Sci U S A (2012) 1.17
Activation of R235A mutant orotidine 5'-monophosphate decarboxylase by the guanidinium cation: effective molarity of the cationic side chain of Arg-235. Biochemistry (2010) 1.17
Evolution of enzymatic activities in the enolase superfamily: L-talarate/galactarate dehydratase from Salmonella typhimurium LT2. Biochemistry (2007) 1.15
Mechanistic diversity in the RuBisCO superfamily: the "enolase" in the methionine salvage pathway in Geobacillus kaustophilus. Biochemistry (2007) 1.14
A RubisCO-like protein links SAM metabolism with isoprenoid biosynthesis. Nat Chem Biol (2012) 1.13
Orotidine 5'-monophosphate decarboxylase: transition state stabilization from remote protein-phosphodianion interactions. Biochemistry (2012) 1.12
Computation-facilitated assignment of the function in the enolase superfamily: a regiochemically distinct galactarate dehydratase from Oceanobacillus iheyensis . Biochemistry (2009) 1.12
Evolution of enzymatic activities in the enolase superfamily: L-rhamnonate dehydratase. Biochemistry (2008) 1.12
Evolution of enzymatic activities in the enolase superfamily: D-tartrate dehydratase from Bradyrhizobium japonicum. Biochemistry (2006) 1.11
Formation and stability of N-heterocyclic carbenes in water: the carbon acid pKa of imidazolium cations in aqueous solution. J Am Chem Soc (2004) 1.10
Evolution of enzymatic activities in the enolase superfamily: D-Mannonate dehydratase from Novosphingobium aromaticivorans. Biochemistry (2007) 1.10
OMP decarboxylase: phosphodianion binding energy is used to stabilize a vinyl carbanion intermediate. J Am Chem Soc (2011) 1.10
Kinetic and thermodynamic barriers to carbon and oxygen alkylation of phenol and phenoxide ion by the 1-(4-methoxyphenyl)ethyl carbocation. J Am Chem Soc (2003) 1.09
Evolution of enzymatic activities in the enolase superfamily: N-succinylamino acid racemase and a new pathway for the irreversible conversion of D- to L-amino acids. Biochemistry (2006) 1.05
Scrambling of oxygen-18 during the "borderline" solvolysis of 1-(3-nitrophenyl)ethyl tosylate. Org Lett (2004) 1.05
Covalent catalysis by pyridoxal: evaluation of the effect of the cofactor on the carbon acidity of glycine. J Am Chem Soc (2007) 1.05
Evolution of enzymatic activities in the enolase superfamily: stereochemically distinct mechanisms in two families of cis,cis-muconate lactonizing enzymes. Biochemistry (2009) 1.04
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. J Am Chem Soc (2010) 1.03
Reactions of ion-pair intermediates of solvolysis. Chem Rec (2005) 1.03
Pyridoxal 5'-phosphate: electrophilic catalyst extraordinaire. Curr Opin Chem Biol (2009) 1.03
Rescue of K12G triosephosphate isomerase by ammonium cations: the reaction of an enzyme in pieces. J Am Chem Soc (2010) 1.02
D-Ribulose 5-phosphate 3-epimerase: functional and structural relationships to members of the ribulose-phosphate binding (beta/alpha)8-barrel superfamily. Biochemistry (2006) 1.02
Mechanism for activation of triosephosphate isomerase by phosphite dianion: the role of a ligand-driven conformational change. J Am Chem Soc (2011) 1.01
Evolution of enzymatic activity in the enolase superfamily: functional studies of the promiscuous o-succinylbenzoate synthase from Amycolatopsis. Biochemistry (2004) 1.00
Target selection and annotation for the structural genomics of the amidohydrolase and enolase superfamilies. J Struct Funct Genomics (2009) 1.00
Divergent function in the crotonase superfamily: an anhydride intermediate in the reaction catalyzed by 3-hydroxyisobutyryl-CoA hydrolase. J Am Chem Soc (2003) 1.00
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. Biochemistry (2003) 0.99
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. J Am Chem Soc (2012) 0.99
A simple method to determine kinetic deuterium isotope effects provides evidence that proton transfer to carbon proceeds over and not through the reaction barrier. J Am Chem Soc (2007) 0.98
Mechanisms of protein evolution and their application to protein engineering. Adv Enzymol Relat Areas Mol Biol (2007) 0.98
Evolutionary potential of (beta/alpha)8-barrels: stepwise evolution of a "new" reaction in the enolase superfamily. Biochemistry (2007) 0.97
Mechanism for activation of triosephosphate isomerase by phosphite dianion: the role of a hydrophobic clamp. J Am Chem Soc (2012) 0.97
Hydrogen bonding and catalysis of solvolysis of 4-methoxybenzyl fluoride. J Am Chem Soc (2002) 0.97