Effective identification of Gram-negative bacterial type III secreted effectors using position-specific residue conservation profiles.

ABSTRACT:

Background

Type III secretion systems (T3SSs) are central to the pathogenesis and specifically deliver their secreted substrates (type III secreted proteins, T3SPs) into host cells. Since T3SPs play a crucial role in pathogen-host interactions, identifying them is crucial to our understanding of the pathogenic mechanisms of T3SSs. This study reports a novel and effective method for identifying the distinctive residues which are conserved different from other SPs for T3SPs prediction. Moreover, the importance of several sequence features was evaluated and further, a promising prediction model was constructed.

Results

Based on the conservation profiles constructed by a position-specific scoring matrix (PSSM), 52 distinctive residues were identified. To our knowledge, this is t

SUBMITTER: Yang X 

PROVIDER: S-EPMC3877298 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature