Catalytic mechanism of 4-oxalocrotonate tautomerase: significances of protein-protein interactions on proton transfer pathways

scientific article published on 28 March 2012

Catalytic mechanism of 4-oxalocrotonate tautomerase: significances of protein-protein interactions on proton transfer pathways is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1021/JP212643J
P932PMC publication ID3651878
P698PubMed publication ID22417185

P50authorGerardo Andrés CisnerosQ42705793
P2093author name stringHao Hu
Weitao Yang
Robin Chaudret
Pan Wu
Xiangqian Hu
P2860cites workDevelopment of the Colle-Salvetti correlation-energy formula into a functional of the electron densityQ21708802
Density-functional exchange-energy approximation with correct asymptotic behaviorQ21709057
Crystal structure of 4-oxalocrotonate tautomerase inactivated by 2-oxo-3-pentynoate at 2.4 A resolution: analysis and implications for the mechanism of inactivation and catalysisQ27765706
All-atom empirical potential for molecular modeling and dynamics studies of proteinsQ27860468
The 4-oxalocrotonate tautomerase family of enzymes: how nature makes new enzymes using a beta-alpha-beta structural motifQ28202879
4-Oxalocrotonate tautomerase, an enzyme composed of 62 amino acid residues per monomerQ28213798
Physically associated enzymes produce and metabolize 2-hydroxy-2,4-dienoate, a chemically unstable intermediate formed in catechol metabolism via meta cleavage in Pseudomonas putidaQ28354983
Kinetic and stereochemical analysis of YwhB, a 4-oxalocrotonate tautomerase homologue in Bacillus subtilis: mechanistic implications for the YwhB- and 4-oxalocrotonate tautomerase-catalyzed reactionsQ28488962
Extending the treatment of backbone energetics in protein force fields: limitations of gas-phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulationsQ29547631
Mechanism of OMP decarboxylation in orotidine 5'-monophosphate decarboxylaseQ30539734
A stable dimer in the pH-induced equilibrium unfolding of the homo-hexameric enzyme 4-oxalocrotonate tautomerase (4-OT).Q32067738
Revealing noncovalent interactionsQ33830576
Concerted O atom-proton transfer in the O-O bond forming step in water oxidationQ33842023
Catalytic role of the amino-terminal proline in 4-oxalocrotonate tautomerase: affinity labeling and heteronuclear NMR studiesQ34062202
MATCH: an atom-typing toolset for molecular mechanics force fields.Q34063434
NCIPLOT: a program for plotting non-covalent interaction regionsQ34822784
Autocatalytic intramolecular isopeptide bond formation in gram-positive bacterial pili: a QM/MM simulationQ34844854
Analysis of hydrogen-bond interaction potentials from the electron density: integration of noncovalent interaction regions.Q36837200
QM/MM Minimum Free Energy Path: Methodology and Application to Triosephosphate IsomeraseQ37010676
Free energies of chemical reactions in solution and in enzymes with ab initio quantum mechanics/molecular mechanics methodsQ37055269
Elucidating solvent contributions to solution reactions with ab initio QM/MM methodsQ37106113
Mechanism of Cdc25B phosphatase with the small molecule substrate p-nitrophenyl phosphate from QM/MM-MFEP calculations.Q37265822
Calculating solution redox free energies with ab initio quantum mechanical/molecular mechanical minimum free energy path methodQ37330110
A pseudobond parametrization for improved electrostatics in quantum mechanical/molecular mechanical simulations of enzymesQ37330116
Critical role of substrate conformational change in the proton transfer process catalyzed by 4-oxalocrotonate tautomerase.Q37353149
Inactivation of 4-oxalocrotonate tautomerase by 2-oxo-3-pentynoateQ40871721
Ab initio QM/MM study shows there is no general acid in the reaction catalyzed by 4-oxalocrotonate tautomeraseQ44554799
The protein backbone makes important contributions to 4-oxalocrotonate tautomerase enzyme catalysis: understanding from theory and experimentQ44915810
Electrostatic interactions dominate the catalytic contribution of arg39 in 4-oxalocrotonate tautomeraseQ45093878
Half-of-the-sites binding of reactive intermediates and their analogues to 4-oxalocrotonate tautomerase and induced structural asymmetry of the enzymeQ46504015
Theoretical and experimental determination on two substrates turned over by 4-oxalocrotonate tautomeraseQ46888619
Quadratic string method for determining the minimum-energy path based on multiobjective optimizationQ46936491
Quantum chemical modeling of enzymatic reactions: the case of 4-oxalocrotonate tautomeraseQ46975606
Understanding the enzymatic activity of 4-oxalocrotonate tautomerase and its mutant analogues: a computational study.Q52573868
Quantum mechanics/molecular mechanics minimum free-energy path for accurate reaction energetics in solution and enzymes: sequential sampling and optimization on the potential of mean force surface.Q53551886
Substrate Orientation in 4-Oxalocrotonate Tautomerase and Its Effect on QM/MM Energy ProfilesQ57397917
Kinetic, stereochemical, and structural effects of mutations of the active site arginine residues in 4-oxalocrotonate tautomeraseQ73011032
P433issue23
P407language of work or nameEnglishQ1860
P921main subjectprotein-protein interactionQ896177
P304page(s)6889-6897
P577publication date2012-03-28
P1433published inJournal of Physical Chemistry BQ668669
P1476titleCatalytic mechanism of 4-oxalocrotonate tautomerase: significances of protein-protein interactions on proton transfer pathways
P478volume116

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cites work (P2860)
Q47164878A half-site multimeric enzyme achieves its cooperativity without conformational changes
Q39463066Multiscale Quantum Mechanics/Molecular Mechanics Simulations with Neural Networks
Q37037749Noncovalent Interaction Analysis in Fluctuating Environments
Q36597422Pseudobond parameters for QM/MM studies involving nucleosides, nucleotides, and their analogs

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