Basic Info

EffectiveT3 software was used to identify and predict type III secretion systems by scoring each amino acid sequence according to an in-house specific computational model

More Details

Type III Secretion System (T3SS) is a sophisticated transmembrane channel composed of a multi-component protein complex. It exerts its pathogenic effects by directly secreting or injecting virulence proteins (also known as effector proteins) into host cells, and is prevalent in various Gram-negative pathogenic bacteria. During the initial stage of bacterial infection in the host, effector proteins are synthesized within the bacteria and subsequently transported across the membrane to the host cells via T3SS. Once inside the host cells, these effector proteins perform diverse functions such as reshaping the cytoskeleton, modulating immune responses, and influencing cell survival, thereby facilitating bacterial colonization within the host cells. It is noteworthy that the transport of effector proteins from bacteria to host cells not only relies on the assistance of their own signal sequences and/or chaperone proteins but is also precisely regulated by T3SS.

What's New

EffectiveT3 is a universal prediction program for the identification of novel Type-III secreted effectors.

Predict Type-III secreted proteins for all aminoacid sequences in a fasta file (Galaxy Version 2.0.2)

Additional Information

Related links:

https://galaxy.lisc.univie.ac.at/?tool_id=effectivet3&version=latest

Literature

Eichinger V, Nussbaumer T, Platzer A, Jehl MA, Arnold R, Rattei T. EffectiveDB--updates and novel features for a better annotation of bacterial secreted proteins and Type III, IV, VI secretion systems. Nucleic Acids Res. 2016;44(D1):D669-D674. doi:10.1093/nar/gkv1269

Arnold R, Brandmaier S, Kleine F, et al. Sequence-based prediction of type III secreted proteins [published correction appears in PLoS Pathog. 2009 Apr;5(4). doi: 10.1371/annotation/78659a32-7869-4b14-91a6-b301a588d937]. PLoS Pathog. 2009;5(4):e1000376. doi:10.1371/journal.ppat.1000376