PPI - IID Symbol 1 Symbol 2 PMID DBs Evidence Type Adipose Tissue Adrenal Gland Amygdala Bone Bone Marrow Brain Dorsal Root Ganglia Eye Heart Hindgut Hypothalamus Kidney Liver Lung Lymph Nodes Mammary Gland Midgut Neurons Ovary Pancreas Pituitary Gland Placenta Prostate Salivary Gland Skeletal Muscle Small Intestine Spleen Stomach Testes Uterus RUB1 SLF1 22271760 biogrid exp RUB1 CRC1 16554755 biogrid,i2d,mint,intact exp ESS1 RUB1 16606443 biogrid,mint,intact exp RPN11 RUB1 23105008 biogrid exp PRP40 RUB1 16606443 biogrid,mint,intact exp RTT101 RUB1 14519104 dip exp RUB1 LAG2 19942853 intact exp NAB2 RUB1 19840948 biogrid exp DDI1 RUB1 23105008 biogrid exp RUB1 RUD3 16554755 biogrid,i2d,mint,intact exp GIS2 RUB1 21232131 biogrid exp RPN10 RUB1 23105008 biogrid exp, ortho UBC12 RUB1 11283351,10655498, 23023127 i2d,mint,intact,dip exp, ortho, pred RUB1 DCN1 15988528, 23023127 biogrid,i2d exp, ortho, pred YUH1 RUB1 12455997, 23023127 biogrid exp, ortho, pred SKP1 RUB1 11283612,10688190,19882662, 23023127 biogrid,i2d,mint,intact,dip exp, ortho, pred PMT5 RUB1 16554755, 23023127 biogrid,i2d,mint,intact exp, pred SET2 RUB1 16606443, 23023127 biogrid,mint,intact exp, pred DSK2 RUB1 23105008, 23023127 biogrid exp, pred RUB1 HRT1 19882662, 23023127 intact exp, pred CUL3 RUB1 14519104, 23023127 dip exp, pred CDC34 RUB1 23023127 i2d exp, pred RSP5 RUB1 16606443, 23023127 biogrid,mint,intact exp, pred RUB1 UBA3 9545234, 23023127 biogrid exp, pred RUB1 CDC53 9531531,19942853,19882662, 23023127 intact,dip exp, pred HCH1 RUB1 16554755, 23023127 biogrid,i2d,mint,intact exp, pred MET30 RUB1 11805837, 23023127 biogrid,intact,dip exp, pred PMI40 RUB1 ortho PRE8 RUB1 ortho SEC23 RUB1 ortho RPP0 RUB1 ortho ERG13 RUB1 ortho PRE10 RUB1 ortho RUB1 RUB1 ortho Eukaryotic translation initiation factor 2A, eIF-2A RUB1 ortho GDI1 RUB1 ortho SCL1 RUB1 ortho TUB1 RUB1 ortho TUB2 RUB1 ortho EHD3 RUB1 ortho RPN1 RUB1 ortho RUB1 EMG1 ortho RPS13 RUB1 ortho URA8 RUB1 ortho RAD1 RUB1 ortho VMA7 RUB1 ortho KAR2 RUB1 ortho PWP1 RUB1 ortho CHC1 RUB1 ortho RPL30 RUB1 ortho NIT2 RUB1 ortho ETP1 RUB1 ortho PRE9 RUB1 ortho RPS20 RUB1 ortho PUP2 RUB1 ortho THS1 RUB1 ortho CDC28 RUB1 ortho RPT6 RUB1 ortho POL30 RUB1 ortho MEMO1 family protein YJR008W RUB1 ortho CPR3 RUB1 ortho RPL5 RUB1 ortho MCM5 RUB1 ortho DBP2 RUB1 ortho RPS7B RUB1 ortho SSE1 RUB1 ortho KRS1 RUB1 ortho SAH1 RUB1 ortho GCN1 RUB1 ortho MCM4 RUB1 ortho HSP60 RUB1 ortho TRM7 RUB1 ortho SSC1 RUB1 ortho HTS1 RUB1 ortho ARG4 RUB1 ortho SDH1 RUB1 ortho RNA1 RUB1 ortho RPS3 RUB1 ortho RPS2 RUB1 ortho PRE5 RUB1 ortho UBA2 RUB1 23023127 ortho, pred UBC4 RUB1 23023127 ortho, pred UBC1 RUB1 23023127 ortho, pred UBI4 RUB1 23023127 pred ULP2 RUB1 23023127 pred URM1 RUB1 23023127 pred UBC7 RUB1 23023127 pred UBC13 RUB1 23023127 pred PEX4 RUB1 23023127 pred UBC11 RUB1 23023127 pred UBP14 RUB1 23023127 pred RUB1 AOS1 23023127 pred UBC6 RUB1 23023127 pred ULP1 RUB1 23023127 pred RUB1 ULA1 23023127 pred UBA1 RUB1 23023127 pred RAD6 RUB1 23023127 pred RUB1 RUP1 23023127 pred RUB1 SMT3 23023127 pred UBC8 RUB1 23023127 pred UBC9 RUB1 23023127 pred UBC5 RUB1 23023127 pred UBP6 RUB1 23023127 pred

PPI - iRefIndex UniProt A UniProt B Method PMID Interaction Type Edge type Num Participants Q03919 - 11805837 - C 8 Q03919 Q12395 - 15988528 - X 2 P52491 Q03919 - 10655498 - X 2 P52491 Q03919 - 11283351 - X 2 P52286 Q03919 - 10688190 - X 2 Q12289 Q03919 affinity chromatography technology 16554755 physical association X 2 Q92325 Q03919 affinity chromatography technology 19942853 physical association X 2 Q92325 Q03919 affinity chromatography technology 19942853 physical association X 2 A0A024R7G8 Q03919 x-ray crystallography 23105008 association X 2 P39014 Q03919 affinity chromatography technology 11805837 physical association X 2 P40087 Q03919 x-ray crystallography 23105008 association X 2 P35127 Q03919 enzymatic study 12455997 direct interaction X 2 Q03919 Q12018 affinity chromatography technology 9531531 physical association X 2 Q03919 Q12395 pull down 15988528 direct interaction X 2 Q03919 Q12018 affinity chromatography technology 9545234 physical association X 2 Q03919 Q12018 affinity chromatography technology 9545234 physical association X 2 Q03919 Q12018 affinity chromatography technology 9545234 physical association X 2 Q03919 Q12018 affinity chromatography technology 19942853 physical association X 2 Q03919 Q12018 affinity chromatography technology 12186635 physical association X 2 Q03919 Q12018 affinity chromatography technology 19942853 physical association X 2 Q03919 Q12018 affinity chromatography technology 17114057 physical association X 2 Q03919 Q12018 affinity chromatography technology 19617556 physical association X 2 Q12234 Q03919 affinity chromatography technology 16554755 physical association X 2 P22696 Q03919 unspecified method 16606443 direct interaction X 2 P43588 Q03919 enzymatic study 23105008 direct interaction X 2 P38886 Q03919 x-ray crystallography 23105008 association X 2 P38886 Q03919 affinity chromatography technology 23105008 physical association X 2 P0CG63 Q03919 affinity chromatography technology 23749301 physical association X 2 P0CG63 Q03919 affinity chromatography technology 23793018 physical association X 2 P0CG63 Q03919 affinity chromatography technology 23105008 physical association X 2 P53834 Q03919 affinity chromatography technology 16554755 physical association X 2 Q03919 A0A024R284 x-ray crystallography 23105008 association X 2 Q03919 P52867 affinity chromatography technology 16554755 physical association X 2 Q03919 P33203 unspecified method 16606443 direct interaction X 2 Q99344 Q03919 pull down 9545234 direct interaction X 2 Q99344 Q03919 pull down 9545234 direct interaction X 2 P46995 Q03919 unspecified method 16606443 direct interaction X 2 P48510 Q03919 affinity chromatography technology 23105008 physical association X 2 P39940 Q03919 affinity chromatography technology 24821572 physical association X 2 P39940 Q03919 affinity chromatography technology 24821572 physical association X 2 P39940 Q03919 unspecified method 16606443 direct interaction X 2 P52286 Q03919 two hybrid 11283612 direct interaction X 2 P52286 Q03919 two hybrid 10688190 direct interaction X 2 Q03919 anti tag coimmunoprecipitation 11805837 - C 23 P39014 Q03919 anti tag coimmunoprecipitation 11805837 physical association X 2 Q03919 Q12018 coimmunoprecipitation 9531531 physical association X 2 Q03919 Q12018 comigration in sds page 14519104 physical association X 2 P53202 Q03919 comigration in sds page 14519104 physical association X 2 Q03919 anti tag coimmunoprecipitation 11805837 - C 10 P52491 Q03919 two hybrid pooling approach 11283351 physical association X 2 P52491 Q03919 two hybrid 10655498 physical association X 2 P47050 Q03919 comigration in sds page 14519104 physical association X 2 P52286 Q03919 two hybrid 10688190 physical association X 2 Q03919 pull down 19882662 association C 41 Q03919 anti tag coimmunoprecipitation 19942853 association C 3 Q03919 anti tag coimmunoprecipitation 11805837 association C 8 Q03919 pull down 19882662 association C 35 Q12289 Q03919 tandem affinity purification 16554755 physical association X 2 Q12234 Q03919 tandem affinity purification 16554755 physical association X 2 P22696 Q03919 protein array 16606443 direct interaction X 2 Q03919 inferred by author 16554755 association C 4 Q03919 pull down 19882662 association C 51 P52491 Q03919 two hybrid fragment pooling approach 11283351 physical association X 2 P53834 Q03919 tandem affinity purification 16554755 physical association X 2 Q03919 P52867 tandem affinity purification 16554755 physical association X 2 Q03919 P33203 protein array 16606443 direct interaction X 2 P46995 Q03919 protein array 16606443 direct interaction X 2 P39940 Q03919 protein array 16606443 direct interaction X 2 P52286 Q03919 two hybrid 10688190 physical association X 2 P14682 Q03919 interaction detection method 9545234 - X 2 Q03919 mass spectrometry studies of complexes 11805837 - C 11 P52491 Q03919 two hybrid 11283351 - X 2 P52491 Q03919 two hybrid 10655498 - X 2 P52286 Q03919 two hybrid 10688190 - X 2

PPI - HINT Gene A Gene B PMID Method Quality ESS1 RUB1 16606443 0089 HT PRP40 RUB1 16606443 0089 HT YUH1 RUB1 12455997 0415 LC RPN10 RUB1 23105008,23105008 0114,0096 LC RSP5 RUB1 16606443 0089 HT DDI1 RUB1 23105008 0114 LC RPN11 RUB1 23105008 0415 LC SET2 RUB1 16606443 0089 HT RTT101 RUB1 14519104,14519104 0808,0415 LC SKP1 RUB1 10688190,10688190,11283612 0397,0018,0018 HT,LC UBC12 RUB1 11283351,11283351,11283351,10655498 0018,0399,0398,0018 HT,LC CUL3 RUB1 14519104,14519104 0808,0415 LC RUB1 CDC53 14519104,12446563,14519104,9531531,9531531 0096,0415,0808,0019,0004 LC RUB1 DCN1 15988528,15988528 0096,0045 LC NAB2 RUB1 19840948 0004 LC RPN10 RUB1 23105008,23105008 0114,0096 LC MET30 RUB1 11805837,11805837 0004,0007 HT DSK2 RUB1 23105008 0096 LC SKP1 RUB1 19882662 0096 LC UBC12 RUB1 9545234,20832729 0096,0004 LC PMT5 RUB1 16554755,16554755 0676,0004 HT HCH1 RUB1 16554755,16554755 0676,0004 HT RUB1 MMS22 26849847 0004 LC RUB1 HRT1 19882662 0096 LC RUB1 CDC53 10579999,14519104,19942853,14519104,19882662,9531531,19942853,19942853,9531531,20832729 0004,0096,0096,0808,0096,0019,0007,0004,0004,0004 LC RUB1 RUD3 16554755,16554755 0676,0004 HT RUB1 CRC1 16554755,16554755,16554755 0363,0676,0004 HT RUB1 DCN1 15988528,15988528 0096,0045 LC RUB1 LAG2 19942853,19942853 0004,0007 LC RUB1 UBA3 20832729,9545234 0004,0096 LC

PPI - Mentha Protein A Protein B Gene A Gene B Score PMID Q12034 Q03919 SLF1 RUB1 0.126 22271760 Q12395 Q03919 DCN1 RUB1 0.309 15988528 Q03919 P52867 RUB1 PMT5 0.236 16554755 Q03919 P32505 RUB1 NAB2 0.126 19840948 Q99344 Q03919 UBA3 RUB1 0.309 9545234 Q03919 P39014 RUB1 MET30 0.236 11805837 Q03919 P33203 RUB1 PRP40 0.332 16606443 Q03919 P39940 RUB1 RSP5 0.332 16606443 Q03919 P35127 RUB1 YUH1 0.309 12455997 Q03919 P46995 RUB1 SET2 0.332 16606443 Q03919 P47050 RUB1 RTT101 0.033 14519104 Q03919 P53849 RUB1 GIS2 0.126 21232131 Q03919 P22696 RUB1 ESS1 0.332 16606443 Q03919 P38886 RUB1 RPN10 0.309 23105008 Q03919 P53202 RUB1 CUL3 0.033 14519104 Q03919 P48510 RUB1 DSK2 0.309 23105008 Q92325 Q03919 LAG2 RUB1 0.21 19942853 Q03919 P52491 RUB1 UBC12 0.261 11283351,10655498 Q03919 P52286 RUB1 SKP1 0.569 10688190,19882662,11283612 Q12289 Q03919 CRC1 RUB1 0.332 16554755 Q03919 P53834 RUB1 HCH1 0.236 16554755 Q12234 Q03919 RUD3 RUB1 0.236 16554755 Q12018 Q03919 CDC53 RUB1 0.376 19942853,14519104,9531531,19882662 Q08273 Q03919 HRT1 RUB1 0.21 19882662