Search for dissertations about: "linear free energy relationships"

Showing result 1 - 5 of 14 swedish dissertations containing the words linear free energy relationships.

  1. 1. Computational Modelling of Ligand Complexes with G-Protein Coupled Receptors, Ion Channels and Enzymes

    Author : Lars Boukharta; Johan Åqvist; Christopher A. Reynolds; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; computer simulations; molecular dynamics; ligand binding; free energy perturbation; linear interaction energy; binding free energy; homology modelling; structure prediction; alanine scanning; site-directed mutagenesis; hERG; GPCR; neuropeptide Y; HIV-1 reverse transcriptase; integron integrase; Molecular Biotechnology; Molekylär bioteknik;

    Abstract : Accurate predictions of binding free energies from computer simulations are an invaluable resource for understanding biochemical processes and drug action. The primary aim of the work described in the thesis was to predict and understand ligand binding to several proteins of major pharmaceutical importance using computational methods. READ MORE

  2. 2. Advances in Ligand Binding Predictions using Molecular Dynamics Simulations

    Author : Henrik Keränen; Johan Åqvist; Jordi Villà i Freixa; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; free-energy perturbation; molecular dynamics; ligand binding; free-energy perturbation; linear interaction energy; binding free-energy; homology modeling; virtual screening; alanine scanning; amino acid mutagenesis; hERG; GPCR; adenosine receptor; serotonin receptor; BRICHOS; cruzain;

    Abstract : Biochemical processes all involve associations and dissociations of chemical entities. Understanding these is of substantial importance for many modern pharmaceutical applications. In this thesis, longstanding problems with regard to ligand binding are treated with computational methods, applied to proteins of key pharmaceutical importance. READ MORE

  3. 3. Concerted or Stepwise? : β-Elimination, Nucleophilic Substitution, Copper Catalysed Aziridination and Ruthenium Catalysed Transfer Hydrogenation Studied by Kinetic Isotope Effects and Linear Free-Energy Relationships

    Author : Per Ryberg; Heinz F. Koch; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; Organic chemistry; Kinetic isotope effect; linear free energy relationship; elimination; substitution; aziridination; transfer hydrogenation; Organisk kemi; Organic chemistry; Organisk kemi; organisk kemi; Organic Chemistry;

    Abstract : This thesis describes the use of kinetic isotope effects, linear free energy relationships and stereochamical studies to distinguish between different mechanistic alternatives and to obtain information about transition state structure.In the first part fluorine and deuterium kinetic isotope effects were determined for the base promoted HF elimination from 4-fluoro-4-(4’-nitrophenyl)butane-2-on. READ MORE

  4. 4. Promiscuity and Selectivity in Phosphoryl Transferases

    Author : Alexandre Barrozo; Shina Kamerlin; Qiang Cui; Uppsala universitet; []
    Keywords : NATURVETENSKAP; NATURAL SCIENCES; phosphate chemistry; linear free energy relationships; phosphatase; catalytic promiscuity; empirical valence bond approach; alkaline phosphatase;

    Abstract : Phosphoryl transfers are essential chemical reactions in key life processes, including energy production, signal transduction and protein synthesis. They are known for having extremely low reaction rates in aqueous solution, reaching the scale of millions of years. READ MORE

  5. 5. Structure and Dynamics of Core-Excited Species

    Author : Oksana Travnikova; Maria Novella Piancastelli; Svante Svensson; Denis Ceolin; Pascal Lablanqui; Uppsala universitet; []
    Keywords : Physics; Synchrotron radiation; X-ray Photoelectron Spectroscopy XPS ; X-ray Absorption Spectroscopy XAS ; Resonant Auger Spectroscopy RAS ; Auger Electron Spectroscopy AES ; Energy-Selected Auger Electron PhotoIon COincidence ES-AEPICO ; core excitation; core ionization; linear free energy relationships LFER ; molecular-field splitting; substituent effects; nuclear dynamics; isomerization; Cl2; N2O; methane derivatives; allene; acetylacetone; Fysik;

    Abstract : In this thesis we have performed core-electron spectroscopy studies of gas phase molecular systems starting with smaller diatomic, continuing with triatomic and extending our research to more complex polyatomic ones. We can subdivide the results presented here into two categories: the first one focusing on electronic fine structure and effect of the chemical bonds on molecular core-levels and the other one dealing with nuclear dynamics induced by creation of a core hole. READ MORE