Related Experiment Video

Updated: May 22, 2026

New Features in Visual Dynamics 3.0
05:00

New Features in Visual Dynamics 3.0

Published on: August 9, 2024

VMD DisRg: New User-Friendly Implement for calculation distance and radius of gyration in VMD program

Sajad Falsafi-Zadeh, Zahra Karimi, Hamid Galehdari

    Bioinformation
    |May 4, 2012
    PubMed
    Abstract

    Keywords:
    VMDcenter of massdistanceplug-inradius of gyration

    More Related Videos

    Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package06:37

    Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package

    Published on: September 17, 2021

    Novel 3D/VR Interactive Environment for MD Simulations, Visualization and Analysis11:29

    Novel 3D/VR Interactive Environment for MD Simulations, Visualization and Analysis

    Published on: December 18, 2014

    Related Concept Videos

    Radius of Gyration of an Area01:12

    Radius of Gyration of an Area

    The second moment of area, also known as the moment of inertia of area, is a crucial factor in understanding an object's resistance against bending deformation, or stiffness. To accurately estimate the second moment of area along any axis, one needs to concentrate all areas associated with that object into a thin strip, which should be placed parallel to that particular axis.
    Molecular Geometry and Dipole Moments02:36

    Molecular Geometry and Dipole Moments

    The VSEPR theory can be used to determine the electron pair geometries and molecular structures as follows:
    Van der Waals Equation01:10

    Van der Waals Equation

    The ideal gas law is an approximation that works well at high temperatures and low pressures. The van der Waals equation of state (named after the Dutch physicist Johannes van der Waals, 1837−1923) improves it by considering two factors.
    First, the attractive forces between molecules, which are stronger at higher densities and reduce the pressure, are considered by adding to the pressure a term equal to the square of the molar density multiplied by a positive coefficient a. Second, the volume...
    Distribution of Molecular Speeds01:27

    Distribution of Molecular Speeds

    The motion of molecules in a gas is random in magnitude and direction for individual molecules, but a gas of many molecules has a predictable distribution of molecular speeds. This predictable distribution of molecular speeds is known as the Maxwell-Boltzmann distribution. The distribution of molecular speeds in liquids is comparable to that of gases but not identical and can help to understand the phenomenon of the boiling and vapor pressure of a liquid. Consider that a molecule requires a...
    Distance Problem01:29

    Distance Problem

    When an object's velocity changes over time, the total distance traveled can be determined by summing small displacement intervals over short increments. This approach approximates the true distance through numerical summation and the use of integral calculus. An estimate of the total displacement can be obtained by measuring velocity at regular intervals and multiplying each value by the corresponding time step.If a runner accelerates over the first three seconds of a race, speed measurements...
    Calculating Standard Deviation01:08

    Calculating Standard Deviation

    The standard deviation is the most common measure of variation. It is a value that tells us how far a data value is from the mean value in a dataset. Further, the standard deviation is always a positive value or zero.
    The standard deviation value is small when all the data is concentrated close to the mean. Here the data exhibits low variation. The standard deviation value is larger when the data values are more spread out from the mean. Here, the data displays high variation.       
    Let us...