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Related Concept Videos

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 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-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-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 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...

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Related Experiment Video

Updated: May 21, 2026

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
10:40

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Published on: December 22, 2017

The seed proteome web portal.

Marc Galland1, Dominique Job, Loïc Rajjou

  • 1INRA, Jean-Pierre Bourgin Institute (IJPB, UMR1318 INRA-AgroParisTech), Laboratory of Excellence "Saclay Plant Sciences" (LabEx SPS); RD10, F-78026 Versailles France.

Frontiers in Plant Science
|June 16, 2012
PubMed
Summary
This summary is machine-generated.

The Seed Proteome Web Portal offers quantitative proteomic data and protocols for Arabidopsis seed germination. It reveals significant protein abundance changes during germination and highlights the role of post-translational modifications.

Keywords:
Arabidopsisdormancygerminationlongevityplantproteomeseedwebsite

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A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
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A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

Area of Science:

  • Plant Biology
  • Proteomics
  • Bioinformatics

Background:

  • Seed germination is a complex process involving dynamic proteome changes.
  • Understanding seed protein dynamics is crucial for agricultural and biological research.
  • Existing resources for seed proteomic data and protocols are limited.

Purpose of the Study:

  • To establish a comprehensive web portal for Arabidopsis seed proteomic data and experimental protocols.
  • To provide quantitative insights into protein abundance changes during seed germination.
  • To facilitate research on seed proteome analysis and related methodologies.

Main Methods:

  • Development of the Seed Proteome Web Portal (SPWP).
  • Annotation of 475 Arabidopsis seed proteins from 2D electrophoresis maps.
  • Quantitative analysis of protein accumulation profiles during germination.
  • Detailed protocols for 2D electrophoresis, sample preparation, and mass spectrometry-based protein identification.
  • Analysis of protein post-translational modifications.

Main Results:

  • SPWP provides access to 475 annotated Arabidopsis seed proteins with quantitative germination data.
  • 40% of seed proteins maintain stable abundance up to radicle protrusion.
  • Significant quantitative variations (increase or decrease) observed in ~50% of proteins during germination (24h) and ~41% during radicle protrusion (24-48h).
  • Poor correlation between theoretical and observed protein isoelectric points indicates the importance of post-translational modifications.
  • SPWP offers detailed protocols for seed proteome studies, including specialized techniques.

Conclusions:

  • The Seed Proteome Web Portal is a valuable resource for Arabidopsis seed proteomic research.
  • Germination involves dynamic regulation of seed protein abundance.
  • Post-translational modifications play a significant role in seed protein characteristics.
  • The portal will be expanded to include data on dormancy release and protein turnover.