Abstract
Since the definition of the degradome as the complete repertoire of proteases in a given organism, the combined effort of numerous laboratories has greatly expanded our knowledge of its roles in biology and pathology. Once the genomic sequences of several important model organisms were made available, we presented the Degradome database containing the curated sets of known protease genes in human, chimpanzee, mouse and rat. Here, we describe the updated Degradome database, featuring 81 new protease genes and 7 new protease families. Notably, in this short time span, the number of known hereditary diseases caused by mutations in protease genes has increased from 77 to 119. This increase reflects the growing interest on the roles of the degradome in multiple diseases, including cancer and ageing. Finally, we have leveraged the widespread adoption of new webtools to provide interactive graphic views that show information about proteases in the global context of the degradome. The Degradome database can be accessed through its web interface at http://degradome.uniovi.es.
Highlights
Proteases catalyze the hydrolysis of peptide bonds in a fundamentally irreversible reaction. This means that these enzymes must be tightly regulated in terms of activation and specificity to avoid massive homeostatic disorders. This need for specificity has led to the evolutionary expansion of protease genes to regulate the correct proteolysis of a large set of substrates
We described the Degradome database, containing the results of the manual annotation of every protease gene in the genomes of human, chimpanzee, mouse, and rat, along with relationships between protease alterations and hereditary diseases [14]
We present the updates to the Degradome database, including new interactive representations which, in our opinion, provide a useful global depiction of the degradomes
Summary
Proteases catalyze the hydrolysis of peptide bonds in a fundamentally irreversible reaction. We described the Degradome database, containing the results of the manual annotation of every protease gene in the genomes of human, chimpanzee, mouse, and rat, along with relationships between protease alterations and hereditary diseases [14]. The Degradome database relies on manual annotation and exhaustive curation of genes, in multiple cases supported by direct cloning and sequencing experiments.
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