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

Protein and Protein Structure02:15

Protein and Protein Structure

87.1K
Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme...
87.1K
Structural Protein Function01:56

Structural Protein Function

29.8K
Structural proteins are a category of proteins responsible for functions ranging from cell shape and movement to providing support to major structures such as bones, cartilage, hair, and muscles. This group includes proteins such as collagen, actin, myosin, and keratin.
Collagen, the most abundant protein in mammals, is found throughout the body. In connective tissue, such as skin, ligaments, and tendons, it provides tensile strength and elasticity.  In bones and teeth, it mineralizes to...
29.8K
Structural Protein Function01:56

Structural Protein Function

3.2K
3.2K
Distance Problem01:29

Distance Problem

59
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...
59
Protein and Protein Structures02:15

Protein and Protein Structures

18.9K
18.9K
Inheritance of Chromatin Structures03:17

Inheritance of Chromatin Structures

7.3K
Epigenetics is the study of inherited changes in a cell's phenotype without changing the DNA sequences. It provides a form of memory for the differential gene expression pattern to maintain cell lineage, position-effect variegation, dosage compensation, and maintenance of chromatin structures such as telomeres and centromeres. For example, the structure and location of the centromere on chromosomes are epigenetically inherited. Its functionality is not dictated or ensured by the underlying...
7.3K

You might also read

Related Articles

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

Sort by
Same author

De novo headache after microsurgical resection or stereotactic radiosurgery of brain arteriovenous malformation.

Headache·2026
Same author

Long-term outcomes after treatment for symptomatic hemorrhage of brain arteriovenous malformations.

Annals of medicine·2026
Same author

De Novo Protein Structure Prediction by Model Quality Assessment Dynamic Feedback Mechanism Using Deep Learning.

IEEE transactions on computational biology and bioinformatics·2025
Same author

QSM predicts haemorrhage risk in brainstem cavernous malformations: a multicentre prospective study.

Journal of neurology, neurosurgery, and psychiatry·2025
Same author

Long-term outcomes and prognostic factors after surgery alone for brain arteriovenous malformation.

Brain circulation·2025
Same author

Radiosurgery versus observation for brainstem cavernous malformations: a 5-year multicentre cohort study.

Brain : a journal of neurology·2024

Related Experiment Video

Updated: Jan 24, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

69.7K

Two-Stage Distance Feature-based Optimization Algorithm for De novo Protein Structure Prediction.

Gui-Jun Zhang, Xiao-Qi Wang, Lai-Fa Ma

    IEEE/ACM Transactions on Computational Biology and Bioinformatics
    |May 21, 2019
    PubMed
    Summary

    This study introduces a two-stage distance feature-based optimization (TDFO) algorithm to improve de novo protein structure prediction. TDFO enhances accuracy by integrating residue-residue distance information within an evolutionary framework.

    More Related Videos

    Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
    10:58

    Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

    Published on: July 25, 2013

    17.6K
    RNA Secondary Structure Prediction Using High-throughput SHAPE
    13:42

    RNA Secondary Structure Prediction Using High-throughput SHAPE

    Published on: May 31, 2013

    32.2K

    Related Experiment Videos

    Last Updated: Jan 24, 2026

    A Protocol for Computer-Based Protein Structure and Function Prediction
    16:41

    A Protocol for Computer-Based Protein Structure and Function Prediction

    Published on: November 3, 2011

    69.7K
    Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
    10:58

    Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

    Published on: July 25, 2013

    17.6K
    RNA Secondary Structure Prediction Using High-throughput SHAPE
    13:42

    RNA Secondary Structure Prediction Using High-throughput SHAPE

    Published on: May 31, 2013

    32.2K

    Area of Science:

    • Computational Biology
    • Biophysics
    • Structural Bioinformatics

    Background:

    • De novo protein structure prediction is a complex optimization problem.
    • Accurate energy functions are crucial but challenging to design.
    • Integrating residue-residue distance information improves prediction accuracy.

    Purpose of the Study:

    • To propose a novel two-stage distance feature-based optimization (TDFO) algorithm.
    • To enhance the accuracy of de novo protein structure prediction.
    • To improve the quality of predicted protein models.

    Main Methods:

    • Utilizing an evolutionary algorithm framework.
    • Designing a similarity model using bisecting K-means on distance profiles.
    • Developing a similarity model-based selection strategy for conformation search.
    • Implementing global/local mutation and state estimation strategies for search space balance.

    Main Results:

    • The proposed TDFO algorithm shows improved prediction accuracy.
    • Demonstrated effectiveness on 35 benchmark proteins.
    • Enhanced model quality through guided conformation search.

    Conclusions:

    • TDFO offers a promising approach for de novo protein structure prediction.
    • The integration of distance features and evolutionary strategies is effective.
    • The algorithm improves prediction accuracy for a significant portion of test proteins.