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Related Concept Videos

Protein Folding Quality Check in the RER01:29

Protein Folding Quality Check in the RER

ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...
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Related Experiment Video

Updated: Jun 23, 2026

RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

CENTROIDFOLD: a web server for RNA secondary structure prediction.

Kengo Sato1, Michiaki Hamada, Kiyoshi Asai

  • 1Japan Biological Informatics Consortium, 2-45 Aomi, Koto-ku, Tokyo 135-8073, Japan. sato-kengo@aist.go.jp

Nucleic Acids Research
|May 14, 2009
PubMed
Summary
This summary is machine-generated.

The CENTROIDFOLD web server offers accurate RNA secondary structure prediction using its advanced CentroidFold engine. This free, user-friendly tool accepts single sequences or multiple alignments, providing results in base-pair notation and graphical formats.

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Last Updated: Jun 23, 2026

RNA Secondary Structure Prediction Using High-throughput SHAPE
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09:51

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A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Molecular Biology

Background:

  • Accurate RNA secondary structure prediction is crucial for understanding RNA function.
  • Existing prediction tools vary in accuracy and usability.
  • The CentroidFold algorithm has demonstrated high accuracy in benchmarks.

Purpose of the Study:

  • To introduce the CENTROIDFOLD web server for RNA secondary structure prediction.
  • To provide a user-friendly and accurate platform for researchers.
  • To offer predictions for both single RNA sequences and multiple sequence alignments.

Main Methods:

  • Development of a web application utilizing the CentroidFold prediction engine.
  • Implementation of input options for single RNA sequences (FASTA or plain text) and multiple sequence alignments (CLUSTAL-W format).
  • Outputting predictions in base-pair notation and graphical representations, with PDF export available.

Main Results:

  • The CENTROIDFOLD web server provides fast and accurate RNA secondary structure predictions.
  • It successfully predicts a common secondary structure for multiple sequence alignments.
  • Benchmark results indicate that the CentroidFold engine achieves top accuracy.

Conclusions:

  • The CENTROIDFOLD web server is a valuable, freely accessible resource for RNA secondary structure prediction.
  • Its high accuracy and ease of use make it a significant tool for molecular biology research.
  • The server enhances the accessibility of advanced RNA structure prediction capabilities.