# HISTORY
25 Mar 2016: Updated by: TOUCHUP-v1.15
15 Mar 2016: Updated by: TOUCHUP-v1.14

# molecular_function
20150408: Eukaryota_PTN001001090 has function thiol-dependent ubiquitin-specific protease activity (GO:0004843) 
20150408: Eukaryota_PTN001001090 has function K63-linked polyubiquitin binding (GO:0070530) 

# cellular_component
20150408: Eukaryota_PTN001001090 is found in cytoplasm (GO:0005737) 
20150408: Eukaryota_PTN001001090 is found in nucleus (GO:0005634) 

# biological_process
20150408: Eukaryota_PTN001001090 participates in protein deubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0071947) 
20150408: Bilateria_PTN000332188 participates in positive regulation of Wnt signaling pathway (GO:0030177) 
20150408: Bilateria_PTN000332188 participates in protein K29-linked deubiquitination (GO:0035523) 
20150408: Bilateria_PTN000332188 participates in cytoskeleton organization (GO:0007010) 
20150408: Bilateria_PTN000332188 participates in cell migration (GO:0016477) 
20150408: Bilateria_PTN000332188 participates in protein K33-linked deubiquitination (GO:1990168) 
20150408: Bilateria_PTN000332227 participates in protein K48-linked deubiquitination (GO:0071108) 
20150408: Bilateria_PTN000332227 participates in immune response (GO:0006955) 
20150408: Bilateria_PTN000332227 participates in protein K11-linked deubiquitination (GO:0035871) 
20150408: Bilateria_PTN000332227 participates in protein K63-linked deubiquitination (GO:0070536) 
20150408: Chordata_PTN001001092 participates in regulation of innate immune response (GO:0045088) 
20150408: Chordata_PTN001001092 participates in negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124) 
20150408: Chordata_PTN001001092 participates in regulation of inflammatory response (GO:0050727) 

# WARNINGS - THE FOLLOWING HAVE BEEN REMOVED FOR THE REASONS NOTED

# NOTES

# REFERENCE
Annotation inferences using phylogenetic trees
The goal of the GO Reference Genome Project, described in PMID 19578431, is to provide accurate, complete and consistent GO annotations for all genes in twelve model organism genomes. To this end, GO curators are annotating evolutionary trees from the PANTHER database with GO terms describing molecular function, biological process and cellular component. GO terms based on experimental data from the scientific literature are used to annotate ancestral genes in the phylogenetic tree by sequence similarity (ISS), and unannotated descendants of these ancestral genes are inferred to have inherited these same GO annotations by descent. The annotations are done using a tool called PAINT (Phylogenetic Annotation and INference Tool).