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Tripartite ATP-Independent Periplasmic Transporters: Application of a Relational Database for Genome-Wide Analysis of Transporter Gene Frequency and Organization

Mulligan C.a · Kelly D.J.b · Thomas G.H.a
aDepartment of Biology, University of York, York, and bDepartment of Molecular Biology and Biotechnology, University of Sheffield, Sheffield, UK J Mol Microbiol Biotechnol 2007;12:218–226 (DOI:10.1159/000099643)

Abstract

Tripartite ATP-independent periplasmic (TRAP) transporters are a family of extracytoplasmic solute receptor-dependent secondary transporters that are widespread in the prokaryotic world but which have not been extensively studied. Here, we present results of a genome-wide analysis of TRAP sequences and genome organization from application of TRAPDb, a relational database created for the collection, curation and analysis of TRAP sequences. This has revealed a specific enrichment in the number of TRAP transporters in several bacteria which is consistent with increased use of TRAP transporters in saline environments. Additionally, we report a number of new organizations of TRAP transporter genes and proteins which suggest the recruitment of TRAP transporter components for use in other biological contexts.

 

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