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Related Concept Videos

Protein Modifications in the RER01:26

Protein Modifications in the RER

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Modification of secretory and transmembrane proteins entering the rough ER begins in the ER lumen. These modifications aid in protein folding and stabilize the acquired tertiary structure. Protein modifications in the rough ER co-occur at different stages of protein folding.
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Post-translational Translocation of Proteins to the RER01:27

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A sizable fraction of proteins destined for ER are first synthesized in the cell cytosol and then transported across the ER membrane–a process called post-translational translocation. Similar to cotranslationally translocated proteins, these proteins also use the Sec translocon complex to enter the ER lumen.
Targeting proteins to the ER
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Proteins can undergo many types of post-translational modifications, often in response to changes in their environment. These modifications play an important role in the function and stability of these proteins. Covalently linked molecules include functional groups, such as methyl, acetyl, and phosphate groups, and also small proteins, such as ubiquitin. There are around 200 different types of covalent regulators that have been identified.
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Identification of Post-translational Modifications of Plant Protein Complexes
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Exploring Posttranslational Modifications with the Plant PTM Viewer.

Patrick Willems1,2

  • 1Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium. patwille.Willems@UGent.be.

Methods in Molecular Biology (Clifton, N.J.)
|May 18, 2022
PubMed
Summary
This summary is machine-generated.

The Plant PTM Viewer simplifies accessing plant protein post-translational modifications (PTMs) from numerous studies. This resource aids researchers in exploring conserved and motif-specific PTMs for functional studies.

Keywords:
PTMPhosphorylationPlant PTM viewerPosttranslational modificationsProteomics

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Area of Science:

  • Proteomics
  • Plant Biology
  • Bioinformatics

Background:

  • Proteomics studies increasingly map diverse protein post-translational modifications (PTMs).
  • Identifying modified protein sites is crucial for downstream functional studies.
  • Extracting PTM information from numerous individual studies and supplementary files is challenging.

Purpose of the Study:

  • To introduce the Plant PTM Viewer as a user-friendly resource for plant protein modifications.
  • To provide instructions and use cases for browsing and collecting PTM data.
  • To enable retrieval of evolutionary conserved and motif-specific PTMs.

Main Methods:

  • Utilizing the Plant PTM Viewer web resource (https://www.psb.ugent.be/PlantPTMViewer).
  • Browsing and collecting PTM data for thousands of plant proteins across 24 modification types.
  • Employing PTM Blast for evolutionary conserved modification retrieval.
  • Using PTM search for motif and sequence context-based PTM discovery.

Main Results:

  • The Plant PTM Viewer consolidates PTM information from over 100 studies.
  • The resource provides intuitive access to PTMs for specific proteins.
  • PTM Blast and PTM search functionalities allow for advanced data retrieval.

Conclusions:

  • The Plant PTM Viewer offers an accessible platform for plant PTM data exploration.
  • It empowers non-bioinformatic experts to conduct functional studies using PTM information.
  • The tool facilitates the discovery of conserved and context-specific PTMs in plants.