We propose a collaboration between Ken Dill (UCSF) and Vojeslav Vlachy (Slovenia) to develop simplified models for the solvation of nonpolar, polar, and ionic solutes in water. We will use models such as the MB model and others, used in conjunction with Monte Carlo simulations, integral equation theories, and by thermodynamic perturbation methods. The questions of interest complement those that can be addressed by all-atom computer simulations: What is the reason that hydrophobicity involves a large heat capacity? Why is the enthalpy of solvation often positive for hydrocarbons in water? What are the effects of solute geometry: is solute binding inside a cavity different than binding to a sphere? How do alcohols and urea perturb water structure? What is the basis for the Hofmeister series, whereby salts in solution change the hydrophobic effect? What makes some salts chaotropic and others kosmotropic? We believe these are important problems of general principle that have not yet been addressed by modeling studies, and that could be of considerable importance in fundamental biochemistry.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
3R01GM063592-04S1
Application #
6949430
Study Section
Special Emphasis Panel (ZRG1)
Program Officer
Wehrle, Janna P
Project Start
2001-09-01
Project End
2005-08-31
Budget Start
2004-09-01
Budget End
2005-08-31
Support Year
4
Fiscal Year
2004
Total Cost
$30,300
Indirect Cost
Name
University of California San Francisco
Department
Pharmacology
Type
Schools of Pharmacy
DUNS #
094878337
City
San Francisco
State
CA
Country
United States
Zip Code
94143
Fennell, Christopher J; Ghousifam, Neda; Haseleu, Jennifer M et al. (2018) Computational Signaling Protein Dynamics and Geometric Mass Relations in Biomolecular Diffusion. J Phys Chem B 122:5599-5609
Primorac, Tomislav; Požar, Martina; Sokoli?, Franjo et al. (2018) A Simple Two Dimensional Model of Methanol. J Mol Liq 262:46-57
Kastelic, Miha; Vlachy, Vojko (2018) Theory for the Liquid-Liquid Phase Separation in Aqueous Antibody Solutions. J Phys Chem B 122:5400-5408
Simon?i?, Matjaž; Urbi?, Tomaž (2018) Hydrogen bonding between hydrides of the upper-right part of the periodic table. Chem Phys 507:34-43
Janc, Tadeja; Lukši?, Miha; Vlachy, Vojko et al. (2018) Ion-specificity and surface water dynamics in protein solutions. Phys Chem Chem Phys 20:30340-30350
Urbic, Tomaz (2018) Two dimensional fluid with one site-site associating point. Monte Carlo, integral equation and thermodynamic perturbation theory study. J Mol Liq 270:87-96
Urbic, Tomaz; Najem, Sara; Dias, Cristiano L (2017) Thermodynamic properties of amyloid fibrils in equilibrium. Biophys Chem 231:155-160
Lukši?, Miha; Hribar-Lee, Barbara; Pizio, Orest (2017) Phase behaviour of a continuous shouldered well model fluid. A grand canonical Monte Carlo study. J Mol Liq 228:4-10
Urbic, Tomaz; Dill, Ken A (2017) Analytical theory of the hydrophobic effect of solutes in water. Phys Rev E 96:032101
Brini, Emiliano; Fennell, Christopher J; Fernandez-Serra, Marivi et al. (2017) How Water's Properties Are Encoded in Its Molecular Structure and Energies. Chem Rev 117:12385-12414

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