PRIAM search

PRIAM search identifies and annotates enzyme-coding genes in fully sequenced genomes to support reconstruction of metabolic pathways using profiles from the ENZYME database.

Key Features:

• Automated enzyme detection: Utilizes position-specific scoring matrices (profiles) tailored to each ENZYME database entry to identify enzyme-coding genes from genomic sequences.
• Logical rule generation: Automatically generates logical rules that determine which profiles are required to infer the presence of specific enzymes in an organism.
• Metabolic pathway reconstruction: Identifies enzyme sets to draft metabolic networks and infer potential metabolic pathways from genomic data.
• KEGG visualization and comparison: Compares predicted enzymes with original genome annotations and visualizes pathways using KEGG graphs to highlight potentially missing enzymes.

Scientific Applications:

• Genome-scale enzyme annotation and metabolic network drafting: Applied to the complete genome of Sinorhizobium meliloti to identify potential metabolic pathways, compare predictions with original annotations, and visualize results with KEGG graphs to detect missing enzymes.

Methodology:

Uses position-specific scoring matrices (profiles) derived from the ENZYME database, automatically generates logical rules to link profiles to enzymes, compares predictions with original genome annotations, and visualizes pathways using KEGG graphs.