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Related Concept Videos

Protein Organization01:24

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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.
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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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PSSweb: protein structural statistics web server.

Thomas Gaillard1, Roland H Stote2, Annick Dejaegere2

  • 1Laboratoire de Biochimie, École Polytechnique, CNRS, Université Paris-Saclay, 91128 Palaiseau cedex, France thomas.gaillard@polytechnique.edu.

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|May 14, 2016
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Summary
This summary is machine-generated.

PSSweb is a new tool for analyzing protein structure ensembles. This web server automates structural statistics and comparisons, aiding structural biology and bioinformatics research.

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Area of Science:

  • Bioinformatics
  • Structural Biology
  • Computational Biology

Background:

  • The growing number of available protein structures necessitates automated tools for comparing structural ensembles.
  • Such comparisons are crucial for various analyses in structural biology and bioinformatics.

Purpose of the Study:

  • To introduce PSSweb, a novel web server designed for automated protein structural statistics.
  • To provide a comprehensive tool for analyzing ensembles of protein structures.

Main Methods:

  • PSSweb accepts an ensemble of Protein Data Bank (PDB) files as input.
  • It performs multiple sequence alignment and calculates structural statistics for each aligned position.
  • Optional features include structure superposition, Cartesian coordinate statistics, dihedral angle analysis, and cluster analysis.

Main Results:

  • The server generates an interactive report summarizing results with tables, figures, and 3D visualizations.
  • It facilitates detailed analysis of structural variations within protein ensembles.

Conclusions:

  • PSSweb offers an automated and interactive solution for protein structural ensemble analysis.
  • This tool enhances the capabilities of structural biologists and bioinformaticians in studying protein structures.