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Related Concept Videos

Conservation of Protein Domains02:26

Conservation of Protein Domains

Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...
Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...
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.
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

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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Domain view: a web tool for protein domain visualization and analysis.

Xiaokang Pan1, Craig A Bingman, Gary E Wesenberg

  • 1Center for Eukaryotic Structural Genomics, Department of Biochemistry, University of Wisconsin at Madison, Madison, WI 53706, USA.

Journal of Structural and Functional Genomics
|October 15, 2010
PubMed
Summary

DomainView is a web tool that helps researchers select protein targets for structural biology studies. It visualizes predicted protein domains, disordered regions, and secondary structures, improving experimental design.

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Area of Science:

  • Structural biology
  • Bioinformatics
  • Genomics

Background:

  • Accurate prediction of protein features like domains and disordered regions is crucial for structural genomics and experimental design.
  • Current methods may lack integrated visualization and analysis tools for selecting protein targets.

Purpose of the Study:

  • To develop and present DomainView, a web-based tool for visualizing and analyzing predicted protein features.
  • To enhance the efficiency of selecting protein targets for structural biology studies.

Main Methods:

  • Development of a MySQL relational database to store protein sequence data and predicted features.
  • Implementation of a Perl CGI script for the web graphical-user interface.
  • Graphical display of protein domains, disordered regions, secondary structures, and low complexity segments.

Main Results:

  • DomainView provides a graphical interface for analyzing predicted protein features.
  • The tool links graphical representations to detailed annotations and prediction programs.
  • Facilitates informed selection of experimental protein structure targets.

Conclusions:

  • DomainView aids in the efficient selection of protein targets for structural biology.
  • The tool integrates visualization and analysis of diverse protein sequence features.
  • Improves experimental design for structural genomics and directed studies.