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

Frictional Forces on Flat Belts01:28

Frictional Forces on Flat Belts

1.4K
Flat belts are commonly used in various industrial applications for transmitting power from one pulley to another. When a flat belt is wrapped around a set of pulleys, it experiences different tensions at the driving pulley ends due to the friction between the belt and pulley surface. When the pulley moves in a counterclockwise direction, the tension T2 on the opposite side of the pulley where the belt is moving away from is higher than the tension T1 on the side where the belt is moving...
1.4K
Types of Friction Problems01:27

Types of Friction Problems

929
Friction is an essential concept in physics, engineering, and everyday life. It is the force that opposes the relative motion or tendency of such motion between two surfaces in contact. One of the most common types of friction encountered in various applications is dry friction. Dry friction problems can be broadly categorized into three types, each with unique characteristics and challenges.
The first type of dry friction problem involves situations where there is no apparent impending motion....
929
Rolling Resistance01:21

Rolling Resistance

601
When a solid cylinder rolls steadily on a rigid surface, the normal force applied by the surface on the cylinder is perpendicular to the tangent at the contact point. However, since no materials are entirely rigid, the surface's reaction to the cylinder involves a range of normal pressures.
For instance, imagine a hard cylinder rolling on a comparatively soft surface. The cylinder's weight compresses the surface beneath it. As the cylinder moves, the material in front of it slows down due to...
601

You might also read

Related Articles

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

Sort by
Same author

A framework for building a synthetic cell from the SynCell Asia Initiative.

Nature biotechnology·2026
Same author

Tertiary lymphoid structure-related genes drive tumor microenvironment heterogeneity and prognostic disparities in left- <i>vs.</i> right-sided colon cancer.

Translational cancer research·2026
Same author

Understanding Substance Dependence: What Differentiates Addictive from Non-Addictive Drugs?

bioRxiv : the preprint server for biology·2026
Same author

Preparation of Nanostructured FeCoNiMgO<sub><i>x</i></sub> Medium-Entropy Oxides by Using a Milk Template for Efficiently Promoting Oxygen Evolution Reaction.

Langmuir : the ACS journal of surfaces and colloids·2026
Same author

N-Terminal Truncation and Cholesterol-Induced Suppression of Fluctuations Impair p3 (Aβ<sub>17-42</sub>) Adsorption onto Lipid Bilayers.

Langmuir : the ACS journal of surfaces and colloids·2026
Same author

Evolving natural yeast to protein-rich micro-grain adaptable for non-sterile low-carbon biomanufacturing.

Bioresource technology·2026
Same journal

Tau protein differentially affects Piezo1 and Kir2.1 channels in brain capillary endothelial cells.

Biophysical journal·2026
Same journal

Emergent Intercellular Junction Stability during Cyclic Tissue Loading.

Biophysical journal·2026
Same journal

Enhanced-Sampling Simulations Reveal Distinct Intermediates in SARS-CoV-2 FSE Pseudoknot Interconversion.

Biophysical journal·2026
Same journal

Structure-based simulations of the full Flock House virus capsid reveal pathways and energetics of an infection-critical peptide externalization event.

Biophysical journal·2026
Same journal

Quantifying the Peripheral Surface Information Entropy from Conformational Ensembles of Globular Protein-Peptide Complexes.

Biophysical journal·2026
Same journal

Anisotropic unbinding and location-dependent hovering of a kinesin motor head over microtubule.

Biophysical journal·2026
See all related articles

Related Experiment Video

Updated: Jan 12, 2026

Optical Tweezers to Study RNA-Protein Interactions in Translation Regulation
12:26

Optical Tweezers to Study RNA-Protein Interactions in Translation Regulation

Published on: February 12, 2022

5.7K

Folding rate prediction using total contact distance.

Hongyi Zhou1, Yaoqi Zhou

  • 1HHMI Center for Single Molecule Biophysics, Department of Physiology & Biophysics, State University of New York at Buffalo, Buffalo, New York 14214, USA.

Biophysical Journal
|December 26, 2001
PubMed
Summary
This summary is machine-generated.

A new parameter, total contact distance (TCD), accurately predicts protein folding rates by considering sequence separation and contact number. This method outperforms existing models and highlights the importance of long-range contacts in protein folding dynamics.

More Related Videos

Control of Cell Adhesion using Hydrogel Patterning Techniques for Applications in Traction Force Microscopy
12:26

Control of Cell Adhesion using Hydrogel Patterning Techniques for Applications in Traction Force Microscopy

Published on: January 29, 2022

6.3K
A Simplified System for Evaluating Cell Mechanosensing and Durotaxis In Vitro
09:50

A Simplified System for Evaluating Cell Mechanosensing and Durotaxis In Vitro

Published on: August 27, 2015

8.6K

Related Experiment Videos

Last Updated: Jan 12, 2026

Optical Tweezers to Study RNA-Protein Interactions in Translation Regulation
12:26

Optical Tweezers to Study RNA-Protein Interactions in Translation Regulation

Published on: February 12, 2022

5.7K
Control of Cell Adhesion using Hydrogel Patterning Techniques for Applications in Traction Force Microscopy
12:26

Control of Cell Adhesion using Hydrogel Patterning Techniques for Applications in Traction Force Microscopy

Published on: January 29, 2022

6.3K
A Simplified System for Evaluating Cell Mechanosensing and Durotaxis In Vitro
09:50

A Simplified System for Evaluating Cell Mechanosensing and Durotaxis In Vitro

Published on: August 27, 2015

8.6K

Area of Science:

  • Biophysics
  • Computational Biology
  • Protein Folding Dynamics

Background:

  • Protein folding rates are crucial for biological function.
  • Existing parameters like contact order (CO) and long-range order (LRO) show correlations with folding rates.
  • The interplay between sequence separation and contact number in folding rate prediction requires further investigation.

Purpose of the Study:

  • To develop a novel parameter, total contact distance (TCD), integrating sequence separation and contact number.
  • To evaluate the predictive accuracy of TCD against CO and LRO for protein folding rates.
  • To assess the role of short-range versus long-range contacts in determining protein folding rates.

Main Methods:

  • Linear regression analysis to correlate protein folding rates with contact order (CO) and long-range order (LRO).
  • Development and application of the total contact distance (TCD) parameter.
  • Validation using a database of 28 two-state or weakly three-state folding proteins across all structural classes.
  • Jackknife cross-validation to assess predictive accuracy.

Main Results:

  • Total contact distance (TCD) demonstrates superior correlation and prediction accuracy for folding rates compared to CO and LRO.
  • TCD outperforms advanced neural network models using contact order and stability per residue.
  • The predictive accuracy of TCD remains high even when excluding short-range contacts, emphasizing the importance of long-range contacts (sequence separation > 14).
  • A correlation coefficient of 0.89 was achieved with TCD in jackknife cross-validation after excluding a protein with nonlocal disulfide bonds.

Conclusions:

  • Total contact distance (TCD) is a highly accurate parameter for predicting protein folding rates.
  • Long-range contacts with a sequence separation exceeding 14 residues are critical determinants of protein folding rates.
  • The TCD parameter offers a significant advancement in understanding and predicting protein folding dynamics across different structural classes.