𝔖 Bobbio Scriptorium
✦   LIBER   ✦

Free energy calculations involving NH4+ in water

✍ Scribed by Stéphane Boudon; Georges Wipff


Publisher
John Wiley and Sons
Year
1991
Tongue
English
Weight
845 KB
Volume
12
Category
Article
ISSN
0192-8651

No coin nor oath required. For personal study only.

✦ Synopsis


The analysis of the hydration of NH4+ and the estimation of relative or absolute free energies of hydration by means of Monte Carlo computer simulations using different 1-6-12 potential fcnctions is reported. Two electrostatic representations of NH,+ (used respectively by W. L. Jorgensen and P. A. Kollman) in conjunction with two common water models (TIP3P and TIP4P) are considered. A change in relative hydration free energies of 1.7 kcal/mol is found when the NH4+ models are mutated into each other in either TIP3P or TIP4P. The NH4+ -+ Na+ mutation in both solvent models leads to similar but overestimated relative hydration energies of about -28.7 kcal/mol. Similarly, the NH4+ annihilation significantly overestimates the absolute free energy of hydration. H TIP3P 0 H -0.400 -0.896 +0.474


📜 SIMILAR VOLUMES


Free energy perturbation calculations in
✍ David M. Ferguson; David A. Pearlman; William C. Swope; Peter A. Kollman 📂 Article 📅 1992 🏛 John Wiley and Sons 🌐 English ⚖ 995 KB

The solvation free energies of thymine and adenine were calculated using free energy methods to examine the effect of applying LennardJones 6-12 and 10-12 perturbations to the hydrogen-bonding groups. The calculations were performed using a new free energy algorithm developed for the AMBER 4.0 progr

Free Energy Calculations of Mutations In
✍ Alfonso T. García-Sosa; Ricardo L. Mancera 📂 Article 📅 2010 🏛 Wiley (John Wiley & Sons) 🌐 English ⚖ 625 KB

## Abstract The accurate calculation of the free energy of interaction of protein‐water‐ligand systems has an important role in molecular recognition and drug design that is often not fully considered. We report free energy thermodynamic integration calculations used to evaluate the effects of incl

Efficient free energy calculation of wat
✍ Keiko Shinoda; Wataru Shinoda; Masuhiro Mikami 📂 Article 📅 2008 🏛 John Wiley and Sons 🌐 English ⚖ 216 KB

## Abstract An efficient free energy (FE) calculation of a water molecule to go across lipid membranes is presented. Both overlapping distribution and cavity insertion Widom methods are complementarily used. The former is useful for a dense region where water molecules are found, i.e., from the int

Calculation of free energy differences f
✍ F. Sussman; J.M. Goodfellow; P. Barnes; J.L. Finney 📂 Article 📅 1985 🏛 Elsevier Science 🌐 English ⚖ 623 KB

Free cncrpy dUi'ercnccs for \VLLIC~ tit dU%rent tctnprrlrtutca Ittivr! ban cdrulnted i'tonr Mtintc Cat10 conrpulcr ahnQln. tlans um bdtlr tntlo ov~rlep ana untbrelle annip!& tnetlrtulu. IIlr! pmblcnts al'~~lculn11~ preclsc valuca I'mn the tncthbdn arc dtscus5cd. The nlodcla r0r wntcr (ST2, 'PIPS2 nn

Multipole electrostatics in hydration fr
✍ Yue Shi; Chuanjie Wu; Jay W. Ponder; Pengyu Ren 📂 Article 📅 2010 🏛 John Wiley and Sons 🌐 English ⚖ 241 KB

## Abstract Hydration free energy (HFE) is generally used for evaluating molecular solubility, which is an important property for pharmaceutical and chemical engineering processes. Accurately predicting HFE is also recognized as one fundamental capability of molecular mechanics force field. Here, w