Domain Organization of Long Autotransporter Signal Sequences
Jan A. Hiss and Gisbert Schneider
Johann Wolfgang Goethe-University, Chair for Chem- and Bioinformatics, Centre for Membrane Proteomics, Siesmayerstr. 70, D-60323 Frankfurt am Main, Germany.
Abstract
Bacterial autotransporters represent a diverse family of proteins that autonomously translocate across the inner membrane of Gram-negative bacteria via the Sec complex and across the outer bacterial membrane. They often possess exceptionally long N-terminal signal sequences. We analyzed 90 long signal sequences of bacterial autotransporters and members of the two-partner secretion pathway in silico and describe common domain organization found in 79 of these sequences. The domains are in agreement with previously published experimental data. Our algorithmic approach allows for the systematic identification of functionally different domains in long signal sequences.
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