AnDom

AnDom assigns structural domains in protein sequences by matching sequences to SCOP version 1.50–derived profile-specific matrices to identify and classify domains in multidomain and large proteins.

Key Features:

• Domain Assignment: AnDom assigns all known structural domains present in an input protein sequence, including multidomain and large proteins.
• SCOP-derived Profiles: Uses profile-specific matrices derived from custom-generated multiple sequence alignments of all known SCOP domains (SCOP version 1.50).
• Rapid Prediction: Performs rapid domain prediction enabling high-throughput analyses.

Scientific Applications:

• Structural Genomics: Facilitates investigation of complex eukaryotic protein families by defining structural domain organization and its functional implications.
• Protein Family Analysis: Classifies proteins by structural domains to elucidate evolutionary relationships and functional characteristics within protein families.
• Drug Discovery and Biotechnology: Supports applied research where accurate domain annotation informs target characterization and engineering efforts.

Methodology:

AnDom employs custom-generated multiple sequence alignments to build profile-specific matrices for each SCOP domain, then scans input protein sequences with those profiles to identify and assign structural domains based on best matches to known structures.