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Related Concept Videos

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...
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...
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...
Membrane Domains01:18

Membrane Domains

The membrane domains concentrate specific lipids and proteins at one place within the membrane, which helps in cell signaling, adhesion, and other critical cellular processes. These domains can differ in size, composition, function, and lifespan.
Protein Domains
The membrane comprises a group of distinct proteins responsible for carrying out a cell's specific function. For example, the plasma membrane of the human sperm, or a single germ cell, contains a unique set of proteins in the anterior...
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...
Conserved Binding Sites01:49

Conserved Binding Sites

Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally analyses the...

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Related Experiment Video

Updated: May 28, 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

Protein structural domains: definition and prediction.

Iakes Ezkurdia1, Michael L Tress1

  • 1Spanish National Cancer Research Centre (CNIO)-Structural Biology and Biocomputing Programme, Madrid, Spain.

Current Protocols in Protein Science
|November 3, 2011
PubMed
Summary
This summary is machine-generated.

Protein domain prediction is key for understanding protein structure and function. This guide covers tools and strategies for accurate domain boundary and orientation prediction using accessible web resources.

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Area of Science:

  • * Biochemistry and Structural Biology
  • * Bioinformatics and Computational Biology

Background:

  • * Predicting protein structural domains is crucial for understanding protein structure and function.
  • * Existing methods require accessible tools and clear strategies for effective application.

Purpose of the Study:

  • * To provide a comprehensive overview of available tools for protein domain prediction.
  • * To detail sequence and structural analysis methods that complement domain prediction.
  • * To discuss strategies and potential challenges in predicting domain boundaries and orientation.

Main Methods:

  • * Review and listing of various domain prediction tools.
  • * Description of sequence analysis techniques (e.g., homology searching, motif analysis).
  • * Description of structural analysis techniques (e.g., fold recognition, structural alignment).

Main Results:

  • * A curated list of domain prediction tools and complementary analysis methods is presented.
  • * Step-by-step guidance for domain prediction is provided.
  • * Strategies for different protein sequences and common pitfalls in boundary prediction are outlined.
  • * The complex issue of domain orientation prediction is addressed.

Conclusions:

  • * Accessible web servers and databases facilitate domain boundary prediction without requiring advanced computational expertise.
  • * Integrated approaches using sequence and structural analysis enhance domain prediction accuracy.
  • * The discussed methods and resources empower researchers in protein structure and function prediction.