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 KSP1 VPS27 16319894 biogrid,i2d exp VPS27 SIZ1 23712011 biogrid exp KSS1 VPS27 16319894 biogrid,i2d exp SSZ1 VPS27 19536198 intact exp HEK2 VPS27 18805955 biogrid exp VPS27 BCK1 16319894 biogrid,i2d exp HSL1 VPS27 16319894 biogrid,i2d exp MCK1 VPS27 16319894 biogrid,i2d exp IRE1 VPS27 16319894 biogrid,i2d exp VPS27 PKH2 22918958 biogrid exp UBI4 VPS27 12750381,14581452,11988742,12970172,12900393,12055639 biogrid,mint,intact exp DBF2 VPS27 16319894,16242037 biogrid,i2d exp VPS27 Putative serine/threonine-protein kinase YPL150W 16319894 biogrid,i2d exp SSE1 VPS27 19536198 intact exp VPS27 PRK1 16319894 biogrid,i2d exp DOA1 VPS27 18508771 biogrid exp TPK3 VPS27 16319894 biogrid,i2d exp APM3 VPS27 i2d exp VPS27 VPS28 12900393 biogrid exp CDC19 VPS27 22940862 biogrid exp RPL40A VPS27 12055639 dip exp YCK2 VPS27 16319894, 23023127 biogrid,i2d exp, pred VPS27 PRR2 16319894, 23023127 biogrid,i2d exp, pred VPS27 IST1 18032584, 23023127 biogrid exp, pred HSE1 VPS27 15086794,16429126,22615397,18467557,11283351,16554755,20826334,20305637,11805826,14581452,10688190,12055639,17543868, 23023127 biogrid,i2d,mint,intact,dip exp, pred CHC1 VPS27 14581452, 23023127 biogrid exp, pred VPS27 SEC28 17101773, 23023127 intact exp, pred VPS27 SEC27 17101773, 23023127 intact exp, pred VPS27 COP1 17101773, 23023127 biogrid,intact exp, pred VPS27 ENT3 15107463, 23023127 biogrid exp, pred VPS27 ENT5 15107463, 23023127 biogrid exp, pred STP22 VPS27 15086794,14581452,12900393,21505419,17513562,22918958, 23023127 biogrid,i2d,mint,intact exp, pred VPS27 VPS27 11805826,12750381, 23023127 biogrid,mint,intact exp, pred SSA2 VPS27 16429126, 23023127 intact exp, pred VPS27 VPS36 23023127 pred YDJ1 VPS27 23023127 pred VPS15 VPS27 23023127 pred VPS27 VPS4 23023127 pred SEC63 VPS27 23023127 pred ATG8 VPS27 23023127 pred VPS27 GGA1 23023127 pred SLA2 VPS27 23023127 pred YPT1 VPS27 23023127 pred PAN1 VPS27 23023127 pred SEC65 VPS27 23023127 pred VPS27 ATG3 23023127 pred VPS27 MVP1 23023127 pred VPS27 APL4 23023127 pred UBC5 VPS27 23023127 pred VPS21 VPS27 23023127 pred VPS27 UBI4 23023127 pred VPS27 TOM22 23023127 pred VPS35 VPS27 23023127 pred TIM17 VPS27 23023127 pred GGA2 VPS27 23023127 pred VPS1 VPS27 23023127 pred SNF7 VPS27 23023127 pred APS1 VPS27 23023127 pred YPT53 VPS27 23023127 pred YAP1801 VPS27 23023127 pred PEP8 VPS27 23023127 pred PEP12 VPS27 23023127 pred VPS27 VTI1 23023127 pred VPS27 VPS9 23023127 pred YPT52 VPS27 23023127 pred MYO3 VPS27 23023127 pred PEP1 VPS27 23023127 pred VPS24 VPS27 23023127 pred VPS27 SNX3 23023127 pred APL2 VPS27 23023127 pred VPS27 VPS5 23023127 pred VID24 VPS27 23023127 pred ARL1 VPS27 23023127 pred VPS27 YAP1802 23023127 pred VPS27 APM1 23023127 pred VPS33 VPS27 23023127 pred

PPI - iRefIndex UniProt A UniProt B Method PMID Interaction Type Edge type Num Participants P40343 P38753 - 11805826 - X 2 P40343 P38753 - 11805826 - X 2 P40343 P38753 - 15044803 - X 2 P40343 P25604 - 15086794 - X 2 P40343 P38753 - 11283351 - X 2 P40343 P38753 - 10688190 - X 2 P40343 P38753 - 15086794 - X 2 P0CG63 P40343 affinity chromatography technology 12055639 physical association X 2 P0CG63 P40343 affinity chromatography technology 23749301 physical association X 2 P0CG63 P40343 biochemical 23583075 association X 2 P0CG63 P40343 affinity chromatography technology 17644757 physical association X 2 P0CG63 P40343 affinity chromatography technology 23793018 physical association X 2 P0CG63 P40343 pull down 12900393 direct interaction X 2 P0CG63 P40343 x-ray crystallography 14581452 association X 2 P0CG63 P40343 pull down 14581452 direct interaction X 2 P0CG63 P40343 unspecified method 12750381 direct interaction X 2 P0CG63 P40343 unspecified method 11988742 direct interaction X 2 P0CG63 P40343 unspecified method 12970172 direct interaction X 2 P0CG63 P40343 unspecified method 12970172 direct interaction X 2 P0CG63 P40343 x-ray crystallography 12970172 association X 2 P0CG63 P40343 pull down 11988742 direct interaction X 2 P0CG63 P40343 affinity chromatography technology 21427232 physical association X 2 P0CG63 P40343 affinity chromatography technology 21242292 physical association X 2 P0CG63 P40343 affinity chromatography technology 22106047 physical association X 2 P0CG63 P40343 affinity chromatography technology 22493318 physical association X 2 Q01389 P40343 enzymatic study 16319894 direct interaction X 2 P40343 P00549 affinity chromatography technology 22940862 physical association X 2 P40343 P25604 affinity chromatography technology 22918958 physical association X 2 P40343 P25604 affinity chromatography technology 14581452 physical association X 2 P40343 P38753 affinity chromatography technology 12055639 physical association X 2 P40343 P25604 two hybrid 15086794 direct interaction X 2 P40343 P25604 two hybrid 15086794 direct interaction X 2 P40343 P38753 two hybrid 15086794 direct interaction X 2 P40343 P38753 two hybrid 15086794 direct interaction X 2 P40343 P0CH28 pull down 20150893 direct interaction X 2 P40343 Q04195 affinity chromatography technology 23712011 physical association X 2 P40343 Q03769 affinity chromatography technology 15107463 physical association X 2 P40343 P25604 affinity chromatography technology 12900393 physical association X 2 P40343 P25604 affinity chromatography technology 12900393 physical association X 2 P40343 Q02767 affinity chromatography technology 12900393 physical association X 2 P40343 P25604 pull down 14581452 direct interaction X 2 P40343 P22137 pull down 14581452 direct interaction X 2 P40343 P38753 affinity chromatography technology 14581452 physical association X 2 P40343 P25604 x-ray crystallography 21505419 association X 2 P40343 P25604 pull down 21505419 direct interaction X 2 P40343 P25604 pull down 21505419 direct interaction X 2 P40343 P40343 x-ray crystallography 12750381 association X 2 P40343 P40343 pull down 12750381 direct interaction X 2 P40343 P38753 affinity chromatography technology 16554755 physical association X 2 P40343 P38753 affinity chromatography technology 16429126 physical association X 2 P40343 P38753 affinity chromatography technology 16429126 physical association X 2 P40343 P21965 enzymatic study 16319894 direct interaction X 2 P40343 P40494 enzymatic study 16319894 direct interaction X 2 P40343 Q12310 enzymatic study 16319894 direct interaction X 2 P40343 P53622 affinity chromatography technology 17101773 physical association X 2 P40343 P38753 affinity chromatography technology 17200106 physical association X 2 P40343 P38753 two hybrid 11283351 direct interaction X 2 P40343 P38753 two hybrid 11283351 direct interaction X 2 P40343 P25604 protein complementation assay 17513562 direct interaction X 2 P40343 P38753 affinity chromatography technology 17543868 physical association X 2 P40343 P38753 x-ray crystallography 17543868 association X 2 P40343 P53843 imaging technique 18032584 colocalization X 2 P40343 P38753 protein complementation assay 18467557 direct interaction X 2 P40343 P36037 affinity chromatography technology 18508771 physical association X 2 P40343 P38753 affinity chromatography technology 20826334 physical association X 2 P40343 P38753 pull down 20826334 direct interaction X 2 P40343 P38753 affinity chromatography technology 11805826 physical association X 2 P40343 P38753 affinity chromatography technology 11805826 physical association X 2 P40343 P38753 two hybrid 10688190 direct interaction X 2 P40343 P38753 two hybrid 10688190 direct interaction X 2 P40343 P38753 protein complementation assay 22615397 direct interaction X 2 P23292 P40343 enzymatic study 16319894 direct interaction X 2 P22204 P40343 enzymatic study 16319894 direct interaction X 2 P22204 P40343 enzymatic study 16242037 direct interaction X 2 P40343 Q12236 enzymatic study 22918958 direct interaction X 2 P40343 P47160 affinity chromatography technology 15107463 physical association X 2 P40343 P34244 enzymatic study 16319894 direct interaction X 2 P40343 P32361 enzymatic study 16319894 direct interaction X 2 P40343 P38691 enzymatic study 16319894 direct interaction X 2 P40343 P14681 enzymatic study 16319894 direct interaction X 2 P40343 P05986 enzymatic study 16319894 direct interaction X 2 P40343 Q12152 enzymatic study 16319894 direct interaction X 2 P40343 P05759 affinity chromatography technology 12055639 physical association X 2 P40343 P38753 inferred by author 11805826 direct interaction X 2 P40343 P38753 coimmunoprecipitation 12055639 direct interaction X 2 P40343 P38753 tandem affinity purification 11805826 direct interaction X 2 P40343 P38753 two hybrid pooling approach 11283351 direct interaction X 2 P40343 P38753 two hybrid pooling approach 11283351 direct interaction X 2 P40343 P38753 two hybrid 10688190 direct interaction X 2 P40343 P38753 molecular sieving 20305637 direct interaction X 2 P40343 P38753 two hybrid 10688190 direct interaction X 2 P40343 P38753 pull down 20305637 direct interaction X 2 P40343 P38753 tandem affinity purification 11805826 direct interaction X 2 P40343 tandem affinity purification 11805826 association C 3 P40343 tandem affinity purification 11805826 association C 3 P32589 P40343 tandem affinity purification 19536198 association X 2 P0CG63 P40343 nuclear magnetic resonance 12970172 direct interaction X 2 P0CG63 P40343 nuclear magnetic resonance 12970172 direct interaction X 2 P0CG63 P40343 isothermal titration calorimetry 12970172 direct interaction X 2 P0CG63 P40343 isothermal titration calorimetry 12970172 direct interaction X 2 P0CG63 P40343 pull down 12970172 direct interaction X 2 P40343 P38753 two hybrid 10688190 physical association X 2 P40343 P38753 two hybrid 10688190 physical association X 2 P40343 P38753 two hybrid fragment pooling approach 11283351 physical association X 2 P40343 P38753 two hybrid fragment pooling approach 11283351 physical association X 2 P40343 P0CG48 pull down 11988742 direct interaction X 2 P40343 P0CG48 pull down 11988742 physical association X 2 P40343 P0CG48 nuclear magnetic resonance 12750381 direct interaction X 2 P40343 P0CG48 nuclear magnetic resonance 12750381 direct interaction X 2 P40343 P0CG48 surface plasmon resonance 12750381 direct interaction X 2 P40343 P38753 tandem affinity purification 16429126 physical association X 2 P40343 P38753 inferred by author 16429126 physical association X 2 P40343 P38753 inferred by author 16554755 association X 2 P40343 P38753 tandem affinity purification 16554755 physical association X 2 P40343 P41811 anti tag coimmunoprecipitation 17101773 physical association X 2 P40343 P53622 anti tag coimmunoprecipitation 17101773 physical association X 2 P40343 P38753 dihydrofolate reductase reconstruction 18467557 physical association X 2 P40343 P38753 dihydrofolate reductase reconstruction 18467557 physical association X 2 P40343 P25604 isothermal titration calorimetry 21505419 direct interaction X 2 P40343 P25604 isothermal titration calorimetry 21505419 direct interaction X 2 P40343 P25604 isothermal titration calorimetry 21505419 direct interaction X 2 P40343 P25604 isothermal titration calorimetry 21505419 direct interaction X 2 P40343 P25604 x-ray crystallography 21505419 direct interaction X 2 P40343 P25604 isothermal titration calorimetry 21505419 direct interaction X 2 P40343 P25604 isothermal titration calorimetry 21505419 direct interaction X 2 P40343 tandem affinity purification 16429126 association C 3 P40343 tandem affinity purification 11805826 association C 3 P40343 P40509 anti tag coimmunoprecipitation 17101773 physical association X 2 P40343 P40509 anti tag coimmunoprecipitation 17101773 physical association X 2 P40343 P38788 tandem affinity purification 19536198 association X 2 P40343 P0CG53 surface plasmon resonance 20150893 direct interaction X 2 P40343 P0CG53 surface plasmon resonance 20150893 direct interaction X 2 P40343 P0CG53 surface plasmon resonance 20150893 direct interaction X 2 P40343 P0CG53 surface plasmon resonance 20150893 direct interaction X 2 P40343 P0CG53 surface plasmon resonance 20150893 direct interaction X 2 P40343 P0CG53 surface plasmon resonance 20150893 direct interaction X 2 P40343 P38753 two hybrid 11283351 - X 2 P40343 P38153 interaction detection method 9412470 - X 2 P40343 P38753 two hybrid 10688190 - X 2 P40343 P38753 two hybrid 11283351 - X 2 P40343 mass spectrometry studies of complexes 11805826 - C 4 P40343 mass spectrometry studies of complexes 11805826 - C 4

PPI - HINT Gene A Gene B PMID Method Quality TPK3 VPS27 16319894 0415 LC UBI4 VPS27 12970172,14581452,12970172,14581452,12970172,12970172 0114,0114,0077,0096,0096,0065 LC KSS1 VPS27 16319894 0415 LC MCK1 VPS27 16319894 0415 LC DBF2 VPS27 16242037,16319894 0415,0415 LC YCK2 VPS27 16319894 0415 LC STP22 VPS27 21505419,15086794,21505419,21505419,17513562 0114,0018,0096,0065,0090 LC IRE1 VPS27 16319894 0415 LC HSL1 VPS27 16319894 0415 LC KSP1 VPS27 16319894 0415 LC HSE1 VPS27 18467557,12055639,20305637,17543868,11283351,20305637,10688190,11283351,10688190,12055639,22615397,15086794,11283351,18467557,17543868 0111,0019,0071,0004,0398,0096,0397,0399,0018,0004,0090,0018,0018,0090,0114 HT,LC VPS27 VPS27 12750381,12750381 0096,0114 LC VPS27 PRK1 16319894 0415 LC VPS27 BCK1 16319894 0415 LC VPS27 Q12152 16319894 0415 LC VPS27 PKH2 22918958 0415 LC VPS27 PRR2 16319894 0415 LC CDC19 VPS27 22940862 0004 HT RPS31 VPS27 12055639 0004 LC UBI4 VPS27 12055639,11988742,12970172,14581452,22493318,12970172,14581452,11988742,12750381,12900393,21242292,12970172,22106047,12970172 0004,0004,0114,0114,0004,0077,0096,0096,0096,0096,0004,0096,0004,0065 LC SSA2 VPS27 16429126 0676 HT CHC1 VPS27 14581452,14581452 0096,0004 LC STP22 VPS27 21505419,21505419,21505419,12900393,22918958,14581452,14581452 0114,0096,0065,0004,0004,0096,0004 LC SSE1 VPS27 19536198 0676 HT DOA1 VPS27 18508771 0004 LC HSE1 VPS27 12055639,26601941,17200106,14581452,20305637,20826334,17543868,20305637,11805826,16429126,12055639,16554755,16554755,16429126,20826334,11805826,16554755,16429126,11805826,11805826,17543868 0019,0004,0004,0004,0071,0004,0004,0096,0363,0363,0004,0363,0676,0676,0096,0004,0004,0004,0676,0007,0114 LC,HT SSZ1 VPS27 19536198 0676 HT RSP5 VPS27 26508657 0004 LC VPS27 VPS27 12750381,11805826,11805826,12750381 0096,0676,0007,0114 LC,HT VPS27 SEC28 17101773 0007 LC VPS27 SEC27 17101773 0007 LC VPS27 ENT3 15107463 0004 LC VPS27 COP1 17101773,17101773 0004,0007 LC VPS27 IST1 18032584 0428 LC VPS27 VPS28 12900393 0004 LC VPS27 ENT5 15107463 0004 LC VPS27 SIZ1 23712011 0004 LC

PPI - Mentha Protein A Protein B Gene A Gene B Score PMID P53843 P40343 IST1 VPS27 0.126 18032584 P40343 P23292 VPS27 YCK2 0.183 16319894 Q12236 P40343 PKH2 VPS27 0.309 22918958 Q12310 P40343 PRR2 VPS27 0.183 16319894 P40343 P05986 VPS27 TPK3 0.183 16319894 P40343 P0CG48 VPS27 UBC 0.82 11988742,12750381 P40343 P0CG63 VPS27 UBI4 0.988 11988742,14581452,12750381,12900393,12970172 P40343 P40343 VPS27 VPS27 0.623 11805826,12750381 P40343 P38753 VPS27 HSE1 0.985 10688190,26601941,14581452,18467557,12055639,16554755,11283351,20826334,11805826,22615397,16429126 P40343 P25604 VPS27 STP22 0.971 14581452,21505419,22918958,12900393 P40343 P38199 VPS27 HEK2 0.126 18805955 P40343 P32361 VPS27 IRE1 0.183 16319894 P40343 P38691 VPS27 KSP1 0.183 16319894 P40343 P38788 VPS27 SSZ1 0.126 19536198 P40343 P32589 VPS27 SSE1 0.126 19536198 P40343 P39940 VPS27 RSP5 0.126 26508657 P40343 P34244 VPS27 HSL1 0.183 16319894 P40343 P00549 VPS27 CDC19 0.126 22940862 P40343 P0CG53 VPS27 UBB 0.523 20150893 P40343 P0CH28 VPS27 UBC 0.309 20150893 P40343 P10592 VPS27 SSA2 0.126 16429126 P40343 P22137 VPS27 CHC1 0.309 14581452 P40343 P36037 VPS27 DOA1 0.21 18508771 P61864 P40343 RPL40A VPS27 0.033 12055639 Q02767 P40343 VPS28 VPS27 0.21 12900393 P40494 P40343 PRK1 VPS27 0.183 16319894 P47160 P40343 ENT3 VPS27 0.21 15107463 P40343 P14681 VPS27 KSS1 0.183 16319894 Q01389 P40343 BCK1 VPS27 0.183 16319894 Q03769 P40343 ENT5 VPS27 0.21 15107463 P40343 P21965 VPS27 MCK1 0.183 16319894 Q04195 P40343 SIZ1 VPS27 0.126 23712011 P40343 P22204 VPS27 DBF2 0.183 16319894