Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving01:29

Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving

356
Mechanistic models play a crucial role in algorithms for numerical problem-solving, particularly in nonlinear mixed effects modeling (NMEM). These models aim to minimize specific objective functions by evaluating various parameter estimates, leading to the development of systematic algorithms. In some cases, linearization techniques approximate the model using linear equations.
In individual population analyses, different algorithms are employed, such as Cauchy's method, which uses a...
356
Two-Dimensional Force System: Problem Solving01:29

Two-Dimensional Force System: Problem Solving

1.4K
Solving problems related to two-dimensional force systems is an essential aspect of mechanics and engineering. By applying the principles of vector analysis and force equilibrium, one can determine the effect of multiple forces acting on an object in a two-dimensional space.
The first step to solving a two-dimensional force system problem is to draw a free-body diagram of the object under consideration. This diagram helps identify all the external forces acting on the object, including their...
1.4K
Three-Dimensional Force System:Problem Solving01:30

Three-Dimensional Force System:Problem Solving

1.4K
A three-dimensional force system refers to a scenario in which three forces act simultaneously in three different directions. This type of problem is commonly encountered in physics and engineering, where it is necessary to calculate the resultant force on the system, which can then be used to predict or analyze the behavior of the object or structure under consideration.
To solve a three-dimensional force system, first resolve each force into its respective scalar components. Do this using...
1.4K
Two-Dimensional Force System01:20

Two-Dimensional Force System

1.7K
A two-dimensional system in mechanical engineering involves the analysis of motion and forces in a plane. A two-dimensional force vector can be resolved into its components as:
1.7K
Force and Potential Energy in One Dimension01:13

Force and Potential Energy in One Dimension

6.5K
Force can be calculated from the expression for potential energy, which is a function of position. The component of a conservative force, in a particular direction, equals the negative of the derivative of the corresponding potential energy with respect to the displacement in that direction. For regions where potential energy changes rapidly with displacement, the work done and force is maximum. Also, when force is applied along the positive coordinate axis, the potential energy decreases with...
6.5K
Force and Potential Energy in Three Dimensions01:04

Force and Potential Energy in Three Dimensions

5.7K
Consider a particle moving under the action of a conservative force that has components along each coordinate axis. Each component of force is a function of the coordinates. The potential energy function U is also a function of all three spatial coordinates. Force in one dimension can be written as the negative ratio of potential energy change to the displacement along that coordinate. For minimal displacement, the ratios become derivatives. If a function has many variables, the derivative only...
5.7K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Correction to "Mechanistic Insights from Differences in the Aggregate Morphologies of Amphotericin B and Its Less Toxic Variant Am-2-19".

ACS medicinal chemistry letters·2026
Same author

Interplay of SLC33A1-dependent and -independent Golgi sialic acid O-acetylation in CASD1 catalysis.

Nature communications·2026
Same author

Mechanistic Insights from Differences in the Aggregate Morphologies of Amphotericin B and Its Less Toxic Variant Am-2-19 (Turletricin).

ACS medicinal chemistry letters·2026
Same author

Molecular Dynamics Identify Variances Between Galectin Carbohydrate-Binding Sites That Impact the Binding Site Conformation and Ligand Binding.

Proteins·2025
Same author

Chemical Synthesis of Oligosaccharides Derived from <i>Streptococcus Pneumoniae</i> Serotype 35B and D Provides Molecular Insight in l-Ficolin Binding.

Journal of the American Chemical Society·2025
Same author

On the Validation of Protein Force Fields Based on Structural Criteria.

The journal of physical chemistry. B·2024

Related Experiment Video

Updated: Feb 19, 2026

Author Spotlight: Advancing Cell Membrane Biophysics - Exploring Interactions and Challenges Through Experimental and Computational Approaches
07:31

Author Spotlight: Advancing Cell Membrane Biophysics - Exploring Interactions and Challenges Through Experimental and Computational Approaches

Published on: September 1, 2023

3.2K

Optimization of Empirical Force Fields by Parameter Space Mapping: A Single-Step Perturbation Approach.

Martin Stroet1, Katarzyna B Koziara1, Alpeshkumar K Malde1

  • 1School of Chemistry and Molecular Biosciences, University of Queensland , St. Lucia, Queensland 4072, Australia.

Journal of Chemical Theory and Computation
|November 11, 2017
PubMed
Summary

This study introduces a novel method for optimizing atomic interaction parameters by analyzing parameter space surfaces. This approach enhances the accuracy and transferability of force fields for molecular simulations.

More Related Videos

Multiscale Sampling of a Heterogeneous Water/Metal Catalyst Interface using Density Functional Theory and Force-Field Molecular Dynamics
10:52

Multiscale Sampling of a Heterogeneous Water/Metal Catalyst Interface using Density Functional Theory and Force-Field Molecular Dynamics

Published on: April 12, 2019

13.4K
Rapid in-silico Battery Electrolyte Electrochemical Reaction Generation using 3T-VASP Multi-Scale Energy Minimization
05:37

Rapid in-silico Battery Electrolyte Electrochemical Reaction Generation using 3T-VASP Multi-Scale Energy Minimization

Published on: August 22, 2025

710

Related Experiment Videos

Last Updated: Feb 19, 2026

Author Spotlight: Advancing Cell Membrane Biophysics - Exploring Interactions and Challenges Through Experimental and Computational Approaches
07:31

Author Spotlight: Advancing Cell Membrane Biophysics - Exploring Interactions and Challenges Through Experimental and Computational Approaches

Published on: September 1, 2023

3.2K
Multiscale Sampling of a Heterogeneous Water/Metal Catalyst Interface using Density Functional Theory and Force-Field Molecular Dynamics
10:52

Multiscale Sampling of a Heterogeneous Water/Metal Catalyst Interface using Density Functional Theory and Force-Field Molecular Dynamics

Published on: April 12, 2019

13.4K
Rapid in-silico Battery Electrolyte Electrochemical Reaction Generation using 3T-VASP Multi-Scale Energy Minimization
05:37

Rapid in-silico Battery Electrolyte Electrochemical Reaction Generation using 3T-VASP Multi-Scale Energy Minimization

Published on: August 22, 2025

710

Area of Science:

  • Computational Chemistry
  • Molecular Modeling
  • Physical Chemistry

Background:

  • Accurate parametrization of atomic interaction functions is crucial for molecular simulations.
  • Current methods often struggle with complex parameter spaces and combining diverse datasets.
  • Understanding parameter relationships is key to developing robust and transferable force fields.

Purpose of the Study:

  • To present a general method for parametrizing atomic interaction functions using parameter space mapping.
  • To improve the understanding of parameter-data relationships and identify optimal parameter regions.
  • To refine Lennard-Jones parameters for chlorine using experimental data from multiple compounds.

Main Methods:

  • Parameter space mapping by analyzing surfaces of calculated vs. target data differences.
  • Simultaneous refinement of chlorine 6-12 Lennard-Jones parameters against experimental data (solvation free enthalpies, density, heat of vaporization).
  • Utilizing single-step perturbation for efficient calculation of solvation free enthalpies across various parameter combinations.

Main Results:

  • Demonstrated a robust method for combining target data from multiple molecules.
  • Successfully identified optimal parameter regions in the parameter space.
  • Achieved refinement of chlorine parameters against a comprehensive set of experimental data for 10 aromatic-chloro compounds.

Conclusions:

  • The presented method offers a more intuitive understanding of parameter optimization compared to local value or gradient-based approaches.
  • This approach facilitates the creation of accurate and transferable force fields for molecular simulations.
  • The technique is effective for refining parameters against diverse experimental data, improving predictive power.