2024
Monte Carlo simulations for free energies of hydration: Past to present
Jorgensen W. Monte Carlo simulations for free energies of hydration: Past to present. The Journal Of Chemical Physics 2024, 161: 064111. PMID: 39136662, PMCID: PMC11324328, DOI: 10.1063/5.0222659.Peer-Reviewed Original ResearchFree energy of hydrationEnergy of hydrationOrganic moleculesHydration of organic moleculesMonte Carlo statistical mechanics simulationsAtom force fieldStatistical mechanics simulationsTIP4P water modelLennard-Jones interactionsUnsigned errorForce fieldCarbon atomsLennard-JonesFree energyMechanical simulationsWater modelMoleculesMonte Carlo simulationsOptimization potentialTIP4PHydrationAtomsCarlo simulations
2023
OPLS/2020 Force Field for Unsaturated Hydrocarbons, Alcohols, and Ethers
Jorgensen W, Ghahremanpour M, Saar A, Tirado-Rives J. OPLS/2020 Force Field for Unsaturated Hydrocarbons, Alcohols, and Ethers. The Journal Of Physical Chemistry B 2023, 128: 250-262. PMID: 38127719, DOI: 10.1021/acs.jpcb.3c06602.Peer-Reviewed Original ResearchForce fieldStatistical mechanics calculationsUnsaturated hydrocarbonsFree energyPure liquidsFree energy perturbation calculationsStandard force fieldsAtom force fieldAverage unsigned errorOrganic moleculesMechanics calculationsBiomolecular systemsConformational energeticsHeat of vaporizationLarge moleculesKcal/Perturbation calculationsUnsigned errorAverage errorLiquidEtherExperimental dataMoleculesErrorHydration
2017
JAK2 JH2 Fluorescence Polarization Assay and Crystal Structures for Complexes with Three Small Molecules
Newton AS, Deiana L, Puleo DE, Cisneros J, Cutrona KJ, Schlessinger J, Jorgensen WL. JAK2 JH2 Fluorescence Polarization Assay and Crystal Structures for Complexes with Three Small Molecules. ACS Medicinal Chemistry Letters 2017, 8: 614-617. PMID: 28626520, PMCID: PMC5467202, DOI: 10.1021/acsmedchemlett.7b00154.Peer-Reviewed Original Research
2013
Virtual screening reveals allosteric inhibitors of the Toxoplasma gondii thymidylate synthase–dihydrofolate reductase
Sharma H, Landau MJ, Sullivan TJ, Kumar VP, Dahlgren MK, Jorgensen WL, Anderson KS. Virtual screening reveals allosteric inhibitors of the Toxoplasma gondii thymidylate synthase–dihydrofolate reductase. Bioorganic & Medicinal Chemistry Letters 2013, 24: 1232-1235. PMID: 24440298, PMCID: PMC3946055, DOI: 10.1016/j.bmcl.2013.12.039.Peer-Reviewed Original ResearchConceptsThymidylate synthase-dihydrofolate reductaseSynthase-dihydrofolate reductaseVirtual screeningSmall drug-like moleculesAllosteric inhibitorsDrug-like moleculesSpecies-specific inhibitorsNovel allosteric inhibitorsSuitable drug targetsTS domainParasite Toxoplasma gondiiAllosteric inhibitionDrug targetsTS activityReductaseToxoplasma gondiiInhibitorsCompoundsMoleculesEnzymeScreening
2009
Chemical Control over Immune Recognition: A Class of Antibody-Recruiting Small Molecules That Target Prostate Cancer
Murelli RP, Zhang AX, Michel J, Jorgensen WL, Spiegel DA. Chemical Control over Immune Recognition: A Class of Antibody-Recruiting Small Molecules That Target Prostate Cancer. Journal Of The American Chemical Society 2009, 131: 17090-17092. PMID: 19888723, PMCID: PMC2794306, DOI: 10.1021/ja906844e.Peer-Reviewed Original ResearchConceptsSmall moleculesFundamental chemical principlesBifunctional small moleculesProstate-specific membrane antigenProstate cancer cellsProstate cancerChemical principlesBiological evaluationCrystallographic dataMoleculesAmerican male populationTernary complexLNCaP human prostate cancer cellsCancer cellsHuman effector cellsHuman prostate cancer cellsCancer-related deathAntibody-dependent killingClasses of antibodiesHigh therapeutic potentialNovel classAntibody-recruiting moleculesHuman immune systemAnti-DNP antibodiesEffector cells