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 Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Organization01:24

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence.
Protein Organization01:13

Protein Organization

Overview
Protein Organization01:24

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence.
Structural Protein Function01:56

Structural Protein Function

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 form...

You might also read

Related Articles

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

Sort by
Same author

Exploring patient stratification in head and neck squamous cell carcinoma using machine learning techniques: Preliminary results.

Current problems in cancer·2024
Same author

A Computational Workflow to Predict Biological Target Mutations: The Spike Glycoprotein Case Study.

Molecules (Basel, Switzerland)·2023
Same author

An Overview of Artificial Intelligence Applications in Liver and Pancreatic Imaging.

Cancers·2021
Same author

Phylotastic: Improving Access to Tree-of-Life Knowledge With Flexible, on-the-Fly Delivery of Trees.

Evolutionary bioinformatics online·2020
Same author

Microstructure Informed Tractography: Pitfalls and Open Challenges.

Frontiers in neuroscience·2016
Same author

The identification of an integral membrane, cytochrome c urate oxidase completes the catalytic repertoire of a therapeutic enzyme.

Scientific reports·2015

Related Experiment Video

Updated: Jul 6, 2026

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

A constraint logic programming approach to associate 1D and 3D structural components for large protein complexes.

Alessandro Dal Palù1, Enrico Pontelli, Jing He

  • 1Facolta di Scienze MM FF e NN, Dipartimento di Matematica, Universita di Parma, Parco Area delle Scienze 53/A, 43100 Parma, Italy. alessandro.dalpalu@unipr.it

International Journal of Data Mining and Bioinformatics
|April 12, 2008
PubMed
Summary
This summary is machine-generated.

This study introduces a new computational framework using Constraint Logic Programming and parallelism to link protein sequences with alpha-helices from 3D structures. It offers a faster, cost-effective method for predicting protein tertiary structures.

More Related Videos

Structure and Coordination Determination of Peptide-metal Complexes Using 1D and 2D 1H NMR
14:44

Structure and Coordination Determination of Peptide-metal Complexes Using 1D and 2D 1H NMR

Published on: December 16, 2013

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

Related Experiment Videos

Last Updated: Jul 6, 2026

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

Structure and Coordination Determination of Peptide-metal Complexes Using 1D and 2D 1H NMR
14:44

Structure and Coordination Determination of Peptide-metal Complexes Using 1D and 2D 1H NMR

Published on: December 16, 2013

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

Area of Science:

  • Computational Biology
  • Structural Bioinformatics
  • Protein Science

Background:

  • Determining protein tertiary structure is crucial for understanding function.
  • Existing methods for structure determination can be time-consuming and expensive.
  • Accurate prediction of protein structure aids in drug discovery and disease research.

Purpose of the Study:

  • To develop a novel computational framework for associating protein primary sequences with alpha-helices.
  • To leverage Constraint Logic Programming (CLP) and parallelism for efficient structure prediction.
  • To provide a fast and inexpensive alternative for tertiary structure determination of unknown proteins.

Main Methods:

  • A novel framework combining Constraint Logic Programming (CLP) and parallelism was developed.
  • Constraints on helix length, relative position, and connectivity were extracted from 3D low-resolution protein complex data.
  • A secondary structure prediction algorithm guided the constraint-solving process.
  • Parallelism was implemented to improve computational performance for large protein complexes.

Main Results:

  • The framework successfully determined the association between protein primary sequences and alpha-helices.
  • The CLP-based approach efficiently solved complex structural constraints.
  • Parallelism significantly enhanced the processing speed for large protein datasets.
  • The method demonstrated potential as a rapid and economical tool for protein structure analysis.

Conclusions:

  • The developed CLP and parallelism framework offers an efficient method for protein structure prediction.
  • This approach provides a valuable alternative to traditional, more resource-intensive structure determination techniques.
  • The findings contribute to advancing computational methods in structural bioinformatics and protein science.