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

Distributed Loads: Problem Solving01:21

Distributed Loads: Problem Solving

1.3K
Beams are structural elements commonly employed in engineering applications requiring different load-carrying capacities. The first step in analyzing a beam under a distributed load is to simplify the problem by dividing the load into smaller regions, which allows one to consider each region separately and calculate the magnitude of the equivalent resultant load acting on each portion of the beam. The magnitude of the equivalent resultant load for each region can be determined by calculating...
1.3K
Sequence Networks of Rotating Machines01:24

Sequence Networks of Rotating Machines

592
A Y-connected synchronous generator, grounded through a neutral impedance, is designed to produce balanced internal phase voltages with only positive-sequence components. The generator's sequence networks include a source voltage that is exclusively in the positive-sequence network. The sequence components of line-to-ground voltages at the generator terminals illustrate this configuration.
Zero-sequence current induces a voltage drop across the generator's neutral impedance and other...
592
Fast Decoupled and DC Powerflow01:24

Fast Decoupled and DC Powerflow

961
The fast decoupled power flow method addresses contingencies in power system operations, such as generator outages or transmission line failures. This method provides quick power flow solutions, essential for real-time system adjustments. Fast decoupled power flow algorithms simplify the Jacobian matrix by neglecting certain elements, leading to two sets of decoupled equations:
961
Indirect Motor Pathways01:22

Indirect Motor Pathways

3.4K
The indirect motor or extrapyramidal pathways originate in the brainstem, the lower portion of the brain that connects it to the spinal cord. They consist of several distinct tracts, each with specialized functions. The four main tracts of the indirect motor pathways are the vestibulospinal tract, the reticulospinal tract, the tectospinal tract, and the rubrospinal tract.
The vestibulospinal tract originates in the vestibular nuclei of the brainstem. The vestibular system detects changes in...
3.4K
Network Function of a Circuit01:25

Network Function of a Circuit

1.1K
Frequency response analysis in electrical circuits provides vital insights into a circuit's behavior as the frequency of the input signal changes. The transfer function, a mathematical tool, is instrumental in understanding this behavior. It defines the relationship between phasor output and input and comes in four types: voltage gain, current gain, transfer impedance, and transfer admittance. The critical components of the transfer function are the poles and zeros.
1.1K
Differential Equations: Problem Solving01:21

Differential Equations: Problem Solving

239
When analyzing the motion of falling objects, it is essential to consider not only the force of gravity but also the opposing force of air resistance. A practical example involves releasing a heavy test weight during a safety check on a ship. As the weight falls from rest, gravity accelerates it downward while air resistance exerts an upward force that increases with velocity. This dynamic interplay of forces is well described by differential equations, which provide a mathematical framework...
239

You might also read

Related Articles

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

Sort by
Same author

<i>seekrflow</i>: Towards an End-to-End Automated Simulation Pipeline with Machine-Learned Force Fields for Accelerated Drug-Target Kinetic and Thermodynamic Predictions.

Journal of chemical theory and computation·2026
Same author

Condensate-Like Organization in Respiratory Aerosols Modulates the Dynamics of an Airborne Virus.

bioRxiv : the preprint server for biology·2026
Same author

D614G reshapes allosteric networks and opening mechanisms of SARS-CoV-2 spikes.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

Structural dynamics and allosteric communication of a SARS-like bat coronavirus spike glycoprotein.

Biophysical journal·2026
Same author

Advancing Reproducibility and Open Data in Theoretical and Computational Chemistry.

Journal of chemical theory and computation·2026
Same author

Detection of gas bubbles and local voids in molecular simulations using burbuja.

Protein science : a publication of the Protein Society·2026
Same journal

Knowledge Distillation of a Protein Language Model Yields a Foundational Implicit Solvent Model.

Journal of chemical theory and computation·2026
Same journal

Generalizable Protein Folding Pathway Exploration with DA2-GRASP: Extending Beyond Miniproteins.

Journal of chemical theory and computation·2026
Same journal

Improving PCM in Protic Media: Markov State Models for TD-DFT Calculations.

Journal of chemical theory and computation·2026
Same journal

Efficient Coupled-Cluster Python Frameworks for Next-Generation GPUs: A Comparative Study of CuPy and PyTorch on the Hopper and Grace Hopper Architecture.

Journal of chemical theory and computation·2026
Same journal

Extending the MARTINI 3 Coarse-Grained Force Field to Polypeptoids.

Journal of chemical theory and computation·2026
Same journal

Statistical Mechanics of Density- and Temperature-Dependent Potentials: Application to Condensed Phases within GenDPDE.

Journal of chemical theory and computation·2026
See all related articles

Related Experiment Video

Updated: Apr 30, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

1.7K

Weighted Implementation of Suboptimal Paths (WISP): An Optimized Algorithm and Tool for Dynamical Network Analysis.

Adam T Van Wart1, Jacob Durrant1, Lane Votapka1

  • 1Department of Chemistry and Biochemistry, University of California , San Diego, La Jolla, California 92093-0340, United States.

Journal of Chemical Theory and Computation
|May 8, 2014
PubMed
Summary
This summary is machine-generated.

This study introduces WISP, a new program to identify subtle protein communication pathways. WISP reveals additional suboptimal paths crucial for understanding allosteric regulation and drug target modulation.

More Related Videos

Modeling the Functional Network for Spatial Navigation in the Human Brain
05:55

Modeling the Functional Network for Spatial Navigation in the Human Brain

Published on: October 13, 2023

1.7K
Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit
05:30

Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit

Published on: September 8, 2023

1.3K

Related Experiment Videos

Last Updated: Apr 30, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

1.7K
Modeling the Functional Network for Spatial Navigation in the Human Brain
05:55

Modeling the Functional Network for Spatial Navigation in the Human Brain

Published on: October 13, 2023

1.7K
Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit
05:30

Large Scale Energy Efficient Sensor Network Routing Using a Quantum Processor Unit

Published on: September 8, 2023

1.3K

Area of Science:

  • Biophysics
  • Computational Biology
  • Structural Biology

Background:

  • Allostery involves protein residue cooperation, often without major conformational changes.
  • Dynamical network analysis models allosteric signal transmission computationally.
  • Previous methods focused on optimal pathways, potentially missing other regulatory routes.

Purpose of the Study:

  • Introduce Weighted Implementation of Suboptimal Paths (WISP) for identifying suboptimal allosteric pathways.
  • Explore the role of these pathways in signal redundancy and drug target modulation.
  • Demonstrate WISP's utility with a HisH-HisF amidotransferase case study.

Main Methods:

  • Development of the WISP program for identifying suboptimal correlated motion pathways.
  • Utilizing dynamical network analysis to model allosteric communication.
  • Application of WISP to the HisH-HisF amidotransferase system.

Main Results:

  • WISP rapidly identifies multiple suboptimal pathways in allosteric regulation.
  • These pathways offer signal redundancy and highlight key residues for modulation.
  • The HisH-HisF case study showcases WISP's effectiveness.

Conclusions:

  • Suboptimal pathways are important for allosteric signal transmission.
  • WISP provides a novel computational tool for exploring allosteric mechanisms.
  • Understanding these pathways can aid in the rational design of therapeutics targeting allosteric sites.