EffectiveS346

EffectiveS346 predicts bacterial secreted proteins and detects intact type III, IV, and VI secretion systems in bacterial genomes to support studies of bacterial virulence and host–microbe interactions.

Key Features:

• Dual Prediction Strategies: Combines detection of eukaryotic-like protein domains and signal peptide recognition to identify candidate secreted effector proteins.
• SVM Classification: Uses a Support Vector Machine (SVM) approach to classify sequences and identify intact type III, IV, and VI secretion systems.
• Comprehensive Database Integration: Integrates with the Effective database (http://effectors.org) providing precalculated genome-wide predictions across bacterial genomes.

Scientific Applications:

• Virulence Mechanism Characterization: Enables identification of secreted effectors involved in bacterial virulence mechanisms.
• Host–Microbe Interaction Studies: Supports analysis of molecular interactions between bacteria and host organisms, including symbiotic relationships.
• Therapeutic and Vaccine Target Discovery: Facilitates prioritization of candidate effector targets for therapeutic intervention or vaccine development.

Methodology:

EffectiveS346 applies Support Vector Machine (SVM) classification together with detection of eukaryotic-like domains and signal peptide recognition to classify sequences and identify intact type III, IV, and VI secretion systems; predictions are precalculated for whole genomes in the Effective database (http://effectors.org).