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Related Concept Videos

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,...
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,...
Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...
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...
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...
Protein Organization01:13

Protein Organization

Overview

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Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions
11:21

Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions

Published on: January 20, 2022

Protein bioinformatics databases and resources.

Chuming Chen1, Hongzhan Huang, Cathy H Wu

  • 1Department of Computer and Information Sciences, Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA. chenc@cis.udel.edu

Methods in Molecular Biology (Clifton, N.J.)
|November 18, 2010
PubMed
Summary
This summary is machine-generated.

Researchers face confusion navigating protein bioinformatics databases. This review categorizes major resources for comparative proteomics, aiding data-driven discovery and highlighting future database development needs.

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Area of Science:

  • Bioinformatics
  • Proteomics
  • Computational Biology

Background:

  • Numerous protein data repositories exist to support biological knowledge discovery.
  • Researchers struggle to identify appropriate resources for specific problems, leading to confusion.
  • Comparative proteomics research requires efficient access to curated protein information.

Purpose of the Study:

  • To provide a comprehensive review and categorization of major protein bioinformatics databases.
  • To assist researchers in selecting suitable resources for comparative proteomics.
  • To discuss challenges and opportunities in developing new protein bioinformatics databases.

Main Methods:

  • Systematic review of publicly available protein data repositories and resources.
  • Categorization and description of databases relevant to comparative proteomics.
  • Analysis of current challenges and future prospects for protein database development.

Main Results:

  • A categorized overview of key protein bioinformatics databases is presented.
  • The review identifies resources crucial for comparative proteomics research.
  • Discussion on the evolving landscape and future directions for protein data management.

Conclusions:

  • Effective navigation of protein bioinformatics resources is critical for research.
  • This review offers a structured guide to major databases for comparative proteomics.
  • Addressing challenges in database development will enhance biological knowledge discovery.