From Docking False-Positive to Active Anti-HIV Agent
Barreiro G, Kim JT, Guimarães CR, Bailey CM, Domaoal RA, Wang L, Anderson KS, Jorgensen WL. From Docking False-Positive to Active Anti-HIV Agent. Journal Of Medicinal Chemistry 2007, 50: 5324-5329. PMID: 17918923, PMCID: PMC2575345, DOI: 10.1021/jm070683u.Peer-Reviewed Original ResearchWhy Urea Eliminates Ammonia Rather than Hydrolyzes in Aqueous Solution
Alexandrova AN, Jorgensen WL. Why Urea Eliminates Ammonia Rather than Hydrolyzes in Aqueous Solution. The Journal Of Physical Chemistry B 2007, 111: 720-730. PMID: 17249815, PMCID: PMC2995377, DOI: 10.1021/jp066478s.Peer-Reviewed Original ResearchConceptsAddition/elimination mechanismDecomposition of ureaWater moleculesResonance stabilizationAqueous solutionNH3 eliminationNatural bond order analysisQM/MM Monte Carlo simulationsBond order analysisFree energy perturbation calculationsQM/MMExplicit water modelRate-determining stepElimination mechanismOverall free energyLow activation energySolvent effectsElimination reactionHydrogen bondsPreferred reaction routeReaction routeGas phaseTransition stateZwitterionic intermediateAb initio