#ID(s) interactor A	ID(s) interactor B	Alt. ID(s) interactor A	Alt. ID(s) interactor B	Alias(es) interactor A	Alias(es) interactor B	Interaction detection method(s)	Publication 1st author(s)	Publication Identifier(s)	Taxid interactor A	Taxid interactor B	Interaction type(s)	Source database(s)	Interaction identifier(s)	Confidence value(s)	Expansion method(s)	Biological role(s) interactor A	Biological role(s) interactor B	Experimental role(s) interactor A	Experimental role(s) interactor B	Type(s) interactor A	Type(s) interactor B	Xref(s) interactor A	Xref(s) interactor B	Interaction Xref(s)	Annotation(s) interactor A	Annotation(s) interactor B	Interaction annotation(s)	Host organism(s)	Interaction parameter(s)	Creation date	Update date	Checksum(s) interactor A	Checksum(s) interactor B	Interaction Checksum(s)	Negative	Feature(s) interactor A	Feature(s) interactor B	Stoichiometry(s) interactor A	Stoichiometry(s) interactor B	Identification method participant A	Identification method participant B
uniprotkb:Q08003	uniprotkb:P48582	intact:EBI-2353109|uniprotkb:D6VY74|ensemblfungi:YLR073C	intact:EBI-3768|uniprotkb:Q02823|uniprotkb:D6W3T3|ensemblfungi:YPL084W	psi-mi:rfu1_yeast(display_long)|uniprotkb:RFU1(gene name)|psi-mi:RFU1(display_short)|uniprotkb:YLR073C(locus name)	psi-mi:bro1_yeast(display_long)|uniprotkb:ASI6(gene name synonym)|uniprotkb:NPI3(gene name synonym)|uniprotkb:VPS31(gene name synonym)|uniprotkb:YPL084W(locus name)|uniprotkb:BRO1(gene name)|psi-mi:BRO1(display_short)|uniprotkb:LPF2(gene name synonym)|uniprotkb:BRO domain-containing protein 1(gene name synonym)|uniprotkb:BCK1-like resistance to osmotic shock protein 1(gene name synonym)|uniprotkb:Vacuolar protein-sorting-associated protein 31(gene name synonym)|uniprotkb:Amino acid sensor-independent protein 6(gene name synonym)|uniprotkb:Nitrogen permease inactivating protein 3(gene name synonym)	psi-mi:"MI:0007"(anti tag coimmunoprecipitation)	Kimura et al. (2009)	imex:IM-12183|pubmed:19410548	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	psi-mi:"MI:0915"(physical association)	psi-mi:"MI:0469"(IntAct)	intact:EBI-2353118|imex:IM-12183-2	-	psi-mi:"MI:1060"(spoke expansion)	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0496"(bait)	psi-mi:"MI:0498"(prey)	psi-mi:"MI:0326"(protein)	psi-mi:"MI:0326"(protein)	sgd:S000004063|refseq:NP_013174.1|ensemblfungi:YLR073C(gene)|ensemblfungi:YLR073C_mRNA(transcript)|go:"GO:0004843"(thiol-dependent deubiquitinase)|go:"GO:0004857"(enzyme inhibitor activity)|go:"GO:0004869"(cysteine-type endopeptidase inhibitor activity)|go:"GO:0005768"(endosome)|go:"GO:0010992"(ubiquitin recycling)|go:"GO:0016020"(membrane)|go:"GO:0061578"(Lys63-specific deubiquitinase activity)|go:"GO:0070536"(protein K63-linked deubiquitination)	refseq:NP_015241.1|sgd:S000006005|dip:DIP-2225N|mint:P48582|ensemblfungi:YPL084W(gene)|ensemblfungi:YPL084W_mRNA(transcript)|go:"GO:0005737"(cytoplasm)|go:"GO:0005768"(endosome)|go:"GO:0005829"(cytosol)|go:"GO:0006511"(ubiquitin-dependent protein catabolic process)|go:"GO:0007034"(vacuolar transport)|go:"GO:0007584"(response to nutrient)|go:"GO:0010008"(endosome membrane)|go:"GO:0016579"(protein deubiquitination)|go:"GO:0035800"(deubiquitinase activator activity)|go:"GO:0036010"(protein localization to endosome)|go:"GO:0043328"(protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway)|go:"GO:0070676"(intralumenal vesicle formation)|go:"GO:0072671"(mitochondria-associated ubiquitin-dependent protein catabolic process)|go:"GO:1904669"(ATP export)|go:"GO:2000158"(positive regulation of ubiquitin-specific protease activity)|interpro:IPR004328(BRO1)|interpro:IPR025304|interpro:IPR038499|rcsb pdb:1ZB1	psi-mi:"MI:0469"(intact)	-	-	figure legend:Fig. 3D|full coverage:Only protein-protein interactions|curation depth:imex curation	taxid:4932(yeasx)|taxid:4932("Saccharomyces cerevisiae (Baker's yeast)")	-	2009/06/10	2014/10/16	rogid:rOUl3GeOm+zQVcl1K/hLhOxHS0o559292	rogid:NjHfsUkXCOMX/hs2rxrzuXSSe3Q559292	intact-crc:A84E9269E59C03E1|rigid:gQ1t84UMog49edJCRcxX/r985QA	false	flag tag:?-?	myc tag:?-?	-	-	psi-mi:"MI:0705"(anti tag western blot)	psi-mi:"MI:0705"(anti tag western blot)
uniprotkb:Q08003	uniprotkb:P32571	intact:EBI-2353109|uniprotkb:D6VY74|ensemblfungi:YLR073C	intact:EBI-19840|uniprotkb:D6VS55|ensemblfungi:YDR069C	psi-mi:rfu1_yeast(display_long)|uniprotkb:RFU1(gene name)|psi-mi:RFU1(display_short)|uniprotkb:YLR073C(locus name)	psi-mi:ubp4_yeast(display_long)|uniprotkb:DOA4(gene name)|psi-mi:DOA4(display_short)|uniprotkb:MUT4(gene name synonym)|uniprotkb:SSV7(gene name synonym)|uniprotkb:YDR069C(locus name)|uniprotkb:YD9609.23C(orf name)|uniprotkb:YD8554.02C(orf name)|uniprotkb:D4270(orf name)|uniprotkb:NPI2(gene name synonym)|uniprotkb:Ubiquitin-specific-processing protease 4(gene name synonym)|uniprotkb:Deubiquitinating enzyme 4(gene name synonym)|uniprotkb:Vacuole biogenesis protein SSV7(gene name synonym)|uniprotkb:Ubiquitin thioesterase 4(gene name synonym)|uniprotkb:DOS1(gene name synonym)|uniprotkb:UBP4(gene name synonym)	psi-mi:"MI:0007"(anti tag coimmunoprecipitation)	Kimura et al. (2009)	imex:IM-12183|pubmed:19410548	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	psi-mi:"MI:0915"(physical association)	psi-mi:"MI:0469"(IntAct)	intact:EBI-2353118|imex:IM-12183-2	-	psi-mi:"MI:1060"(spoke expansion)	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0496"(bait)	psi-mi:"MI:0498"(prey)	psi-mi:"MI:0326"(protein)	psi-mi:"MI:0326"(protein)	sgd:S000004063|refseq:NP_013174.1|ensemblfungi:YLR073C(gene)|ensemblfungi:YLR073C_mRNA(transcript)|go:"GO:0004843"(thiol-dependent deubiquitinase)|go:"GO:0004857"(enzyme inhibitor activity)|go:"GO:0004869"(cysteine-type endopeptidase inhibitor activity)|go:"GO:0005768"(endosome)|go:"GO:0010992"(ubiquitin recycling)|go:"GO:0016020"(membrane)|go:"GO:0061578"(Lys63-specific deubiquitinase activity)|go:"GO:0070536"(protein K63-linked deubiquitination)	sgd:S000002476|ensemblfungi:YDR069C(gene)|ensemblfungi:YDR069C_mRNA(transcript)|go:"GO:0000502"(proteasome complex)|go:"GO:0004843"(thiol-dependent deubiquitinase)|go:"GO:0005739"(mitochondrion)|go:"GO:0005768"(endosome)|go:"GO:0005829"(cytosol)|go:"GO:0006275"(regulation of DNA replication)|go:"GO:0006511"(ubiquitin-dependent protein catabolic process)|go:"GO:0006897"(endocytosis)|go:"GO:0010992"(ubiquitin recycling)|go:"GO:0010995"(free ubiquitin chain depolymerization)|go:"GO:0016579"(protein deubiquitination)|go:"GO:0031902"(late endosome membrane)|go:"GO:0043162"(ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway)|go:"GO:0070676"(intralumenal vesicle formation)|go:"GO:1904669"(ATP export)|interpro:IPR001394(Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2)|interpro:IPR001763(Rhodanese-like)|interpro:IPR018200|interpro:IPR028889|interpro:IPR036873|interpro:IPR038765|refseq:NP_010354.3|dip:DIP-5298N|mint:P32571	psi-mi:"MI:0469"(intact)	-	-	figure legend:Fig. 3D|full coverage:Only protein-protein interactions|curation depth:imex curation	taxid:4932(yeasx)|taxid:4932("Saccharomyces cerevisiae (Baker's yeast)")	-	2009/06/10	2014/10/16	rogid:rOUl3GeOm+zQVcl1K/hLhOxHS0o559292	rogid:UTBSWmpygyxo1ygxp/sQ8wgqnMo559292	intact-crc:A84E9269E59C03E1|rigid:gQ1t84UMog49edJCRcxX/r985QA	false	flag tag:?-?	ha tag:?-?	-	-	psi-mi:"MI:0705"(anti tag western blot)	psi-mi:"MI:0705"(anti tag western blot)
uniprotkb:Q08003	uniprotkb:P32571	intact:EBI-2353109|uniprotkb:D6VY74|ensemblfungi:YLR073C	intact:EBI-19840|uniprotkb:D6VS55|ensemblfungi:YDR069C	psi-mi:rfu1_yeast(display_long)|uniprotkb:RFU1(gene name)|psi-mi:RFU1(display_short)|uniprotkb:YLR073C(locus name)	psi-mi:ubp4_yeast(display_long)|uniprotkb:DOA4(gene name)|psi-mi:DOA4(display_short)|uniprotkb:MUT4(gene name synonym)|uniprotkb:SSV7(gene name synonym)|uniprotkb:YDR069C(locus name)|uniprotkb:YD9609.23C(orf name)|uniprotkb:YD8554.02C(orf name)|uniprotkb:D4270(orf name)|uniprotkb:NPI2(gene name synonym)|uniprotkb:Ubiquitin-specific-processing protease 4(gene name synonym)|uniprotkb:Deubiquitinating enzyme 4(gene name synonym)|uniprotkb:Vacuole biogenesis protein SSV7(gene name synonym)|uniprotkb:Ubiquitin thioesterase 4(gene name synonym)|uniprotkb:DOS1(gene name synonym)|uniprotkb:UBP4(gene name synonym)	psi-mi:"MI:0096"(pull down)	Kimura et al. (2009)	imex:IM-12183|pubmed:19410548	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	psi-mi:"MI:0407"(direct interaction)	psi-mi:"MI:0469"(IntAct)	intact:EBI-2353146|imex:IM-12183-3	-	-	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0496"(bait)	psi-mi:"MI:0498"(prey)	psi-mi:"MI:0326"(protein)	psi-mi:"MI:0326"(protein)	sgd:S000004063|refseq:NP_013174.1|ensemblfungi:YLR073C(gene)|ensemblfungi:YLR073C_mRNA(transcript)|go:"GO:0004843"(thiol-dependent deubiquitinase)|go:"GO:0004857"(enzyme inhibitor activity)|go:"GO:0004869"(cysteine-type endopeptidase inhibitor activity)|go:"GO:0005768"(endosome)|go:"GO:0010992"(ubiquitin recycling)|go:"GO:0016020"(membrane)|go:"GO:0061578"(Lys63-specific deubiquitinase activity)|go:"GO:0070536"(protein K63-linked deubiquitination)	sgd:S000002476|ensemblfungi:YDR069C(gene)|ensemblfungi:YDR069C_mRNA(transcript)|go:"GO:0000502"(proteasome complex)|go:"GO:0004843"(thiol-dependent deubiquitinase)|go:"GO:0005739"(mitochondrion)|go:"GO:0005768"(endosome)|go:"GO:0005829"(cytosol)|go:"GO:0006275"(regulation of DNA replication)|go:"GO:0006511"(ubiquitin-dependent protein catabolic process)|go:"GO:0006897"(endocytosis)|go:"GO:0010992"(ubiquitin recycling)|go:"GO:0010995"(free ubiquitin chain depolymerization)|go:"GO:0016579"(protein deubiquitination)|go:"GO:0031902"(late endosome membrane)|go:"GO:0043162"(ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway)|go:"GO:0070676"(intralumenal vesicle formation)|go:"GO:1904669"(ATP export)|interpro:IPR001394(Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2)|interpro:IPR001763(Rhodanese-like)|interpro:IPR018200|interpro:IPR028889|interpro:IPR036873|interpro:IPR038765|refseq:NP_010354.3|dip:DIP-5298N|mint:P32571	psi-mi:"MI:0469"(intact)	-	-	figure legend:Fig. 3E, Supp. Fig. 11|full coverage:Only protein-protein interactions|curation depth:imex curation	taxid:4932(yeasx)|taxid:4932("Saccharomyces cerevisiae (Baker's yeast)")	-	2009/06/10	2014/10/16	rogid:rOUl3GeOm+zQVcl1K/hLhOxHS0o559292	rogid:UTBSWmpygyxo1ygxp/sQ8wgqnMo559292	intact-crc:7732FFB92B7B870A|rigid:za8BZauQufeBPBJSYHMEOpDrB50	false	maltose binding protein tag:?-?	v5 tag:c-c|flag tag:n-n	-	-	psi-mi:"MI:0705"(anti tag western blot)	psi-mi:"MI:0705"(anti tag western blot)
uniprotkb:Q08003	uniprotkb:P48582	intact:EBI-2353109|uniprotkb:D6VY74|ensemblfungi:YLR073C	intact:EBI-3768|uniprotkb:Q02823|uniprotkb:D6W3T3|ensemblfungi:YPL084W	psi-mi:rfu1_yeast(display_long)|uniprotkb:RFU1(gene name)|psi-mi:RFU1(display_short)|uniprotkb:YLR073C(locus name)	psi-mi:bro1_yeast(display_long)|uniprotkb:ASI6(gene name synonym)|uniprotkb:NPI3(gene name synonym)|uniprotkb:VPS31(gene name synonym)|uniprotkb:YPL084W(locus name)|uniprotkb:BRO1(gene name)|psi-mi:BRO1(display_short)|uniprotkb:LPF2(gene name synonym)|uniprotkb:BRO domain-containing protein 1(gene name synonym)|uniprotkb:BCK1-like resistance to osmotic shock protein 1(gene name synonym)|uniprotkb:Vacuolar protein-sorting-associated protein 31(gene name synonym)|uniprotkb:Amino acid sensor-independent protein 6(gene name synonym)|uniprotkb:Nitrogen permease inactivating protein 3(gene name synonym)	psi-mi:"MI:0007"(anti tag coimmunoprecipitation)	Kimura et al. (2009)	imex:IM-12183|pubmed:19410548	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	taxid:559292(yeast)|taxid:559292(Saccharomyces cerevisiae)	psi-mi:"MI:0915"(physical association)	psi-mi:"MI:0469"(IntAct)	intact:EBI-2353130|imex:IM-12183-1	-	-	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0499"(unspecified role)	psi-mi:"MI:0496"(bait)	psi-mi:"MI:0498"(prey)	psi-mi:"MI:0326"(protein)	psi-mi:"MI:0326"(protein)	sgd:S000004063|refseq:NP_013174.1|ensemblfungi:YLR073C(gene)|ensemblfungi:YLR073C_mRNA(transcript)|go:"GO:0004843"(thiol-dependent deubiquitinase)|go:"GO:0004857"(enzyme inhibitor activity)|go:"GO:0004869"(cysteine-type endopeptidase inhibitor activity)|go:"GO:0005768"(endosome)|go:"GO:0010992"(ubiquitin recycling)|go:"GO:0016020"(membrane)|go:"GO:0061578"(Lys63-specific deubiquitinase activity)|go:"GO:0070536"(protein K63-linked deubiquitination)	refseq:NP_015241.1|sgd:S000006005|dip:DIP-2225N|mint:P48582|ensemblfungi:YPL084W(gene)|ensemblfungi:YPL084W_mRNA(transcript)|go:"GO:0005737"(cytoplasm)|go:"GO:0005768"(endosome)|go:"GO:0005829"(cytosol)|go:"GO:0006511"(ubiquitin-dependent protein catabolic process)|go:"GO:0007034"(vacuolar transport)|go:"GO:0007584"(response to nutrient)|go:"GO:0010008"(endosome membrane)|go:"GO:0016579"(protein deubiquitination)|go:"GO:0035800"(deubiquitinase activator activity)|go:"GO:0036010"(protein localization to endosome)|go:"GO:0043328"(protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway)|go:"GO:0070676"(intralumenal vesicle formation)|go:"GO:0072671"(mitochondria-associated ubiquitin-dependent protein catabolic process)|go:"GO:1904669"(ATP export)|go:"GO:2000158"(positive regulation of ubiquitin-specific protease activity)|interpro:IPR004328(BRO1)|interpro:IPR025304|interpro:IPR038499|rcsb pdb:1ZB1	psi-mi:"MI:0469"(intact)	-	-	figure legend:Fig. 3D|comment:Interaction performed in cells lacking DOA4.|full coverage:Only protein-protein interactions|curation depth:imex curation	taxid:4932(yeasx)|taxid:4932("Saccharomyces cerevisiae (Baker's yeast)")	-	2009/06/10	2014/10/16	rogid:rOUl3GeOm+zQVcl1K/hLhOxHS0o559292	rogid:NjHfsUkXCOMX/hs2rxrzuXSSe3Q559292	intact-crc:C1A37DD3F98F8B47|rigid:wUXcCd9/JLVqjFZd8/XQZXq+qWI	false	flag tag:?-?	myc tag:?-?	-	-	psi-mi:"MI:0705"(anti tag western blot)	psi-mi:"MI:0705"(anti tag western blot)