MPtopo: A database of membrane protein topology

Sajith Jayasinghe, Kalina Hristova, Stephen H. White

Research output: Contribution to journalArticlepeer-review

Abstract

The reliability of the transmembrane (TM) sequence assignments for membrane proteins (MPs) in standard sequence databases is uncertain because the vast majority are based on hydropathy plots. A database of MPs with dependable assignments is necessary for developing new computational tools for the prediction of MP structure. We have therefore created MPtopo, a database of MPs whose topologies have been verified experimentally by means of crystallography, gene fusion, and other methods. Tests using MPtopo strongly validated four existing MP topology-prediction algorithms. MPtopo is freely available over the internet and can be queried by means of an SQL-based search engine.

Original languageEnglish (US)
Pages (from-to)455-458
Number of pages4
JournalProtein Science
Volume10
Issue number2
DOIs
StatePublished - 2001
Externally publishedYes

Keywords

  • Hydropathy plots
  • Prediction accuracy
  • Protein structure prediction

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology

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