MPtopo: A database of membrane protein topology

Sajith Jayasinghe, Kalina A Hristova, Stephen H. White

Research output: Contribution to journalArticle

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

Fingerprint

Membrane Proteins
Topology
Databases
Search Engine
Crystallography
Gene Fusion
Search engines
Internet
Fusion reactions
Genes

Keywords

  • Hydropathy plots
  • Prediction accuracy
  • Protein structure prediction

ASJC Scopus subject areas

  • Biochemistry

Cite this

MPtopo : A database of membrane protein topology. / Jayasinghe, Sajith; Hristova, Kalina A; White, Stephen H.

In: Protein Science, Vol. 10, No. 2, 2001, p. 455-458.

Research output: Contribution to journalArticle

Jayasinghe, Sajith ; Hristova, Kalina A ; White, Stephen H. / MPtopo : A database of membrane protein topology. In: Protein Science. 2001 ; Vol. 10, No. 2. pp. 455-458.
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