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Research Article

New Escherichia coli outer membrane proteins identified through prediction and experimental verification

¹ Department of Biochemistry and Biophysics, Stockholm University, SE-106 91 Stockholm, Sweden
² Laboratory of Biocomputing, CIRB/Department of Biology, University of Bologna, Bologna, Italy
³ Department of Microbiology and Molecular Medicine, Centre Médical Universitaire, CH-1211 Geneva, Switzerland

(RECEIVED October 5, 2005; FINAL REVISION December 23, 2005; ACCEPTED December 23, 2005)

Many new Escherichia coli outer membrane proteins have recently been identified by proteomics techniques. However, poorly expressed proteins and proteins expressed only under certain conditions may escape detection when wild-type cells are grown under standard conditions. Here, we have taken a complementary approach where candidate outer membrane proteins have been identified by bioinformatics prediction, cloned and overexpressed, and finally localized by cell fractionation experiments. Out of eight predicted outer membrane proteins, we have confirmed the outer membrane localization for five—YftM, YaiO, YfaZ, CsgF, and YliI—and also provide preliminary data indicating that a sixth—YfaL—may be an outer membrane autotransporter.

Keywords: outer membrane protein; bioinformatics; SecB; autotransporter

Reprint requests to: Gunnar Von Heijne, Department of Biochemistry and Biophysics, Stockholm University, SE-106 91 Stockholm, Sweden; e-mail gunnar{at}dbb.su.se; fax: +46-8-15-36-79.

Article published online ahead of print. Article and publication date are at http://www.proteinscience.org/cgi/doi/10.1110/ps.051889506

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