title: Tripartite ATP-independent periplasmic transporters: application of a relational database for genome-wide analysis of transporter gene frequency and organization.
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.
authors.affiliation: Department of Biology, University of York, York, UK.
authors.forename: Christopher
authors.initials: C
authors.lastname: Mulligan
authors.forename: David J
authors.initials: DJ
authors.lastname: Kelly
authors.forename: Gavin H
authors.initials: GH
authors.lastname: Thomas
mesh_terms: D001419:Bacteria / Q000201:enzymology* / Q000235:genetics*; D001692:Biological Transport / Q000235:genetics; D002352:Carrier Proteins / Q000737:chemistry / Q000235:genetics*; D019295:Computational Biology / Q000379:methods; D030541:Databases, Genetic; D023061:Gene Order; D005798:Genes, Bacterial; D016680:Genome, Bacterial; D008958:Models, Molecular; D033903:Periplasmic Proteins / Q000737:chemistry / Q000235:genetics*; D026801:Synteny
chemical_list: D002352:Carrier Proteins; D033903:Periplasmic Proteins