SSP

SSP predicts Small Ubiquitin-related MOdifier (SUMO) substrates across the human proteome and conserved human–mouse orthologs to identify proteins regulated by sumoylation.

Key Features:

• Genome-Scale Analysis: Performs in silico genome-scale analysis of the human proteome using pattern recognition and phylogenetic conservation to identify candidate SUMO substrates conserved across human and mouse genomes.
• Predictive Capability: Produces a list of 2683 potential SUMO substrates conserved between human and mouse genomes.
• Functional Enrichment Analysis: Performs functional enrichment analysis of Gene Ontology (GO) terms and functional domains among predicted substrates compared to the entire human proteome.
• Integration with Experimental Data: Compares predictions with existing in vivo and in vitro studies and highlights putative novel roles of sumoylation, including involvement in sound perception.

Scientific Applications:

• Understanding Sumoylation Roles: Provides insights into biological processes and pathways regulated by sumoylation through comprehensive substrate identification.
• Facilitating Experimental Research: Supplies candidate SUMO substrates for targeted experimental validation studies.
• Cross-Species Conservation Analysis: Identifies substrates conserved between human and mouse to support comparative genomics and evolutionary functional analyses.

Methodology:

Uses in silico genome-scale analysis with pattern recognition and phylogenetic conservation to identify candidates, performs functional enrichment analysis of GO terms and domains against the entire human proteome, and compares predictions to existing in vivo and in vitro data; yielded 2683 conserved human–mouse candidate substrates.