TransAAP

TransAAP predicts and annotates membrane transport proteins from bacterial genome sequences to identify transporter families and support interpretation of microbial transport systems.

Key Features:

• Automated Prediction and Annotation: Automated identification and annotation of membrane transporters from microbial genome sequence data.
• Database Comparisons: Systematic comparisons against the Transporter Classification Database (TCDB), TDB, and selected Pfam and TIGRFAMs transporter families to inform assignments.
• Integration with TransportDB and NCBI RefSeq: Integration with TransportDB to incorporate annotated transporter genes from prokaryotic genomes available in NCBI RefSeq.

Scientific Applications:

• Nutritional Preferences and Environmental Niches: Transporter repertoires inferred from annotations enable analysis of organismal nutritional preferences and environmental adaptations.
• Industrial Biotechnology: Identification of novel transporters that can serve as targets for small-molecule production and metabolic engineering in industrial biotechnology.

Methodology:

Systematic comparison of genome sequences against transporter databases and families (TCDB, TDB, Pfam, TIGRFAMs) with results integrated into TransportDB linked to prokaryotic genomes in NCBI RefSeq.