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Tandem Mass Spectrometry01:21

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Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and reduce chemical noise during analyte detection. Instruments with multiple analyzers separated by an interaction cell enable secondary fragmentation and selected study of the fragment ions.Secondary fragmentations occur in the interaction cell and can be induced by various factors. Fragmentation induced by collision with inert gases, such as N2, Ar, He, etc., is called...
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A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

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Published on: November 3, 2011

Tandem repeats in proteins: from sequence to structure.

Andrey V Kajava1

  • 1Centre de Recherches de Biochimie Macromoléculaire, CNRS, Université Montpellier 1 et 2, 1919 Route de Mende, 34293 Montpellier, Cedex 5, France. andrey.kajava@crbm.cnrs.fr

Journal of Structural Biology
|September 3, 2011
PubMed
Summary

Bioinformatics tools for analyzing protein repeats are crucial. New methods combining structural data and computational approaches improve prediction of protein structures and functions.

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Area of Science:

  • Proteomics
  • Structural Biology
  • Bioinformatics

Background:

  • Conventional bioinformatics tools struggle with analyzing proteins containing tandem repeats.
  • Tandem repeat proteins have distinct structural properties not well-captured by existing methods.
  • Recent advancements in structural biology have provided new insights into these proteins.

Purpose of the Study:

  • To survey recent bioinformatics tools for identifying and analyzing protein repeats.
  • To explore the relationship between protein repeat structure and architecture.
  • To propose hybrid approaches for predicting structures and functions of repeat proteins.

Main Methods:

  • Literature survey of recent bioinformatics tools for protein repeat analysis.
  • Classification and appraisal of newly available 3D protein structures.
  • Integration of bioinformatics with low-resolution structural data (e.g., cryo-electron microscopy).

Main Results:

  • New bioinformatics tools offer improved identification and proteome-wide analysis of protein repeats.
  • A clear relationship exists between the architecture of repeat proteins and the length of their repetitive units.
  • Hybrid approaches enable reliable prediction of protein repeat structures and binding modes.

Conclusions:

  • Specialized bioinformatics tools are essential for studying tandem repeat proteins.
  • Understanding the structure-architecture relationship aids in 3D structure prediction.
  • Integrated computational and biophysical methods advance proteome annotation.