MacSyDB/TXSSdb

Protein secretion systems are key virulence factors of all major bacterial pathogens with an LPS-containing outer membrane. They are also involved in complex antagonistic ecological interactions between bacteria. We designed models and protein profiles to detect an unprecedented number and diversity (∼10000) of bacterial protein secretion systems (T1SS, T2SS, T3SS, T4SS, T5SS, T6SS^i-iii, T9SS) and evolutionarily related appendages (T4P, Tad, Flagellum) in 1528 genomes of diderm bacteria. The TXSScan tool is also now available.

TXSScan is freely available for systematic searches in large datasets (standalone version) or in a webserver.

You can use the webserver version.
Or download the protein profiles and the MacSyFinder models click here: FileS1_TXSScan.tar.gz.

The models and profiles are to be used in conjunction with MacSyFinder and MacSyView (MacSyFinder and MacSyView are freely available). The documentation on these programs can be found at http://macsyfinder.readthedocs.org/.

References:

Abby SS, Cury J, Guglielmini J, Néron B, Touchon M, Rocha EPC. (2016) Identification of protein secretion systems in bacterial genomes. Scientific Reports (6): 23080

For T3SS and Flagellar profiles:

Abby SS, Rocha EPC (2012) The Non-Flagellar Type III Secretion System Evolved from the Bacterial Flagellum and Diversified into Host-Cell Adapted Systems. PLoS Genet 8(9): e1002983.

For T4SS profiles:

Guglielmini, J., Quintais, L., Garcillan-Barcia, M. P., de la Cruz,F. Rocha, E. P. (2011) The Repertoire of ICE in Prokaryotes Underscores the Unity, Diversity, and Ubiquity of Conjugation. PLoS Genet. 7, e1002222, doi:10.1371/journal.pgen.1002222

Guglielmini, J. et al., Key components of the eight classes of type IV secretion systems involved in bacterial conjugation or protein secretion. (2014). Nucleic Acids Res., doi:10.1093/nar/gku194.