Multidimensional free energy volumes offer unique insights into reaction mechanisms, molecular conformation and association

scientific article published on 29 May 2012

Multidimensional free energy volumes offer unique insights into reaction mechanisms, molecular conformation and association is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1039/C2CP23802K
P698PubMed publication ID22644347

P50authorKevin J. NaidooQ42784019
P2860cites workMulticanonical ensemble: A new approach to simulate first-order phase transitionsQ21698968
Development and use of quantum mechanical molecular models. 76. AM1: a new general purpose quantum mechanical molecular modelQ26778456
Determining the density of states for classical statistical models: A random walk algorithm to produce a flat histogramQ27346413
Efficient, Multiple-Range Random Walk Algorithm to Calculate the Density of StatesQ27349838
Catalysis by hen egg-white lysozyme proceeds via a covalent intermediateQ27634351
The three-dimensional crystal structure of the catalytic core of cellobiohydrolase I from Trichoderma reeseiQ27730832
Activity studies and crystal structures of catalytically deficient mutants of cellobiohydrolase I from Trichoderma reeseiQ27734116
Structure of the Fusarium oxysporum endoglucanase I with a nonhydrolyzable substrate analogue: substrate distortion gives rise to the preferred axial orientation for the leaving groupQ27734133
High-resolution crystal structures reveal how a cellulose chain is bound in the 50 A long tunnel of cellobiohydrolase I from Trichoderma reeseiQ27748854
High-accuracy quantum mechanical studies of pi-pi interactions in benzene dimersQ28263362
Aromatic-aromatic interaction: a mechanism of protein structure stabilizationQ29620587
Contact ion pair between Na+ and PtCl(6)(2-) favored in methanolQ33194289
Autoionization in liquid waterQ33938229
Transition path sampling: throwing ropes over rough mountain passes, in the dark.Q34125120
Escaping free-energy minimaQ34151010
Behind the folding funnel diagramQ34193782
Metadynamics as a tool for exploring free energy landscapes of chemical reactionsQ34496163
Structural details of the glycosyltransferase step of peptidoglycan assembly.Q37250015
Computational analyses of the conformational itinerary along the reaction pathway of GH94 cellobiose phosphorylaseQ38292665
Pyranose ring transition state is derived from cellobiohydrolase I induced conformational stability and glycosidic bond polarizationQ38341364
Free energy via molecular simulation: applications to chemical and biomolecular systemsQ38648060
Implementation of an adaptive umbrella sampling method for the calculation of multidimensional potential of mean force of chemical reactions in solutionQ39659294
Navigating the folding routesQ40610371
Experimentally consistent ion association predicted for metal solutions from free energy simulationsQ42660364
Ring puckering: a metric for evaluating the accuracy of AM1, PM3, PM3CARB-1, and SCC-DFTB carbohydrate QM/MM simulationsQ42783989
Twisting of glycosidic bonds by hydrolasesQ43280351
The conformational origin of the barrier to the formation of neighboring group assistance in glycosylation reactions: a dynamical density functional theory studyQ43628206
Carbohydrate solution simulations: producing a force field with experimentally consistent primary alcohol rotational frequencies and populationsQ44124575
Combined QM/MM study of the mechanism and kinetic isotope effect of the nucleophilic substitution reaction in haloalkane dehalogenaseQ44303385
An efficient algorithm for the density-functional theory treatment of dispersion interactionsQ46067417
Molecular details from computational reaction dynamics for the cellobiohydrolase I glycosylation reactionQ46229935
Hydration-determined orientational preferences in aromatic association from benzene dimer free energy volumesQ46646185
The extent of conformational rigidity determines hydration in nonaromatic hexacyclic systemsQ46773285
Puckering coordinates of monocyclic rings by triangular decomposition.Q51045128
Changes in the enzymatic hydrolysis rate of Avicel cellulose with conversion.Q51191253
Free energy surfaces for the alpha(1 --> 4)-glycosidic linkage: implications for polysaccharide solution structure and dynamics.Q51937273
New Monte Carlo algorithm: Entropic sampling.Q52393347
Glycosidase mechanismsQ54043789
Optimization of parameters for semiempirical methods I. MethodQ56429661
“Tetrahedrality” and the Relationship between Collective Structure and Radial Distribution Functions in Liquid WaterQ56834394
Transition structures for the interchange of hydrogen atoms within the water dimerQ56984098
Methylhydroxycarbene: Tunneling Control of a Chemical ReactionQ57742698
P433issue25
P407language of work or nameEnglishQ1860
P304page(s)9026-9036
P577publication date2012-05-29
P1433published inPhysical Chemistry Chemical PhysicsQ3018671
P1476titleMultidimensional free energy volumes offer unique insights into reaction mechanisms, molecular conformation and association
P478volume14

Reverse relations

cites work (P2860)
Q45929875Interpreting medium ring canonical conformers by a triangular plane tessellation of the macrocycle.
Q46387544Producing DFT/MM enzyme reaction trajectories from SCC-DFTB/MM driving forces to probe the underlying electronics of a glycosyltransferase reaction
Q35632175Quantum supercharger library: hyper-parallelism of the Hartree-Fock method

Search more.