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Related Concept Videos

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
Protein-protein Interfaces02:04

Protein-protein Interfaces

Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a polypeptide...
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Proteomics01:33

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term proteomics...

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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

Effective techniques for protein structure mining.

Stefan J Suhrer1, Markus Gruber, Markus Wiederstein

  • 1Center of Applied Molecular Engineering, Division of Bioinformatics, University of Salzburg, Salzburg, Austria. stefan.suhrer@came.sbg.ac.at

Methods in Molecular Biology (Clifton, N.J.)
|February 11, 2012
PubMed
Summary
This summary is machine-generated.

The Classification of Protein Structures (COPS) web service aids in understanding protein structure relationships. COPS facilitates template selection for homology modeling by providing efficient access to protein structure and sequence similarities.

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Area of Science:

  • Structural biology
  • Bioinformatics
  • Computational biology

Background:

  • Protein structure relationships are crucial for various structural biology applications.
  • Efficient retrieval and characterization of these relationships are essential.
  • Existing methods may lack comprehensive access to global structure and sequence similarities.

Purpose of the Study:

  • To highlight the utility of the Classification of Protein Structures (COPS) web service.
  • To demonstrate the application of COPS in homology modeling.
  • To showcase COPS as a tool for template selection.

Main Methods:

  • Utilizing the Classification of Protein Structures (COPS) web service.
  • Leveraging COPS for accessing protein structure similarities.
  • Employing COPS for retrieving protein sequence similarities.

Main Results:

  • COPS provides efficient access to structure and sequence similarities for all known protein structures.
  • The COPS web service is applicable to the challenge of template selection in homology modeling.
  • Demonstrated the effectiveness of COPS in identifying suitable templates.

Conclusions:

  • The Classification of Protein Structures (COPS) is a valuable resource for structural biology.
  • COPS significantly aids in the process of template selection for homology modeling.
  • COPS enhances the efficiency and accuracy of protein structure prediction workflows.