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Protein Families

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 Families

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...

Conservation of Protein Domains Over Different Proteins

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 Complexes with Interchangeable Parts

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 Networks

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 Networks

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,...

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Updated: May 22, 2026

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

Published on: April 11, 2019

PRDB: Protein Repeat DataBase.

Julien Jorda¹, Thierry Baudrand, Andrey V Kajava

¹Centre de Recherches de Biochimie Macromoléculaire UMR 5237, CNRS, University of Montpellier 1 and 2, Montpellier, France.

|May 17, 2012

Summary

This summary is machine-generated.

Scientists created the Protein Tandem Repeat DataBase (PRDB) to analyze protein tandem repeats. This database helps understand protein structure, function, and evolution, crucial for human disease research.

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Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

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Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

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Published on: January 26, 2024

Area of Science:

Bioinformatics
Genomics
Structural Biology

Background:

Genomic data expansion necessitates advanced bioinformatics tools for analyzing protein sequences.
Protein tandem repeats are vital in biological functions and implicated in human diseases.
Conventional analysis methods struggle with protein tandem repeat regions.

Purpose of the Study:

To develop a specialized database for comprehensive analysis of protein tandem repeats.
To facilitate global comparative studies of protein tandem repeat sequences.
To support research into the role of tandem repeats in health and disease.

Main Methods:

Utilized the T-REKS program for identifying protein tandem repeats within sequence databases.
Curated and compiled identified repeats into a dedicated database, the Protein Tandem Repeat DataBase (PRDB).
Developed PRDB to overcome limitations of conventional bioinformatics approaches for repeat analysis.

Main Results:

Successfully identified and cataloged protein tandem repeats using the T-REKS program.
Established the Protein Tandem Repeat DataBase (PRDB) as a centralized resource.
PRDB provides a systematic approach for studying protein tandem repeats.

Conclusions:

The Protein Tandem Repeat DataBase (PRDB) offers a valuable resource for bioinformatics and genomics research.
PRDB enables deeper understanding of protein structure, function, and evolution.
This database aids in investigating the link between protein tandem repeats and human diseases.