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 RPN10 DDI1 22815701 biogrid exp DDI1 JJJ3 19536198 intact exp RPL40A DDI1 11323716 dip exp DDI1 CDC53 22815701 biogrid exp DDI1 CSL4 16554755 intact exp SNC1 DDI1 10330187,12925750 biogrid exp RPS27A DDI1 22815701 biogrid exp SSB1 DDI1 19536198 intact exp DDI1 UFO1 22815701,16478980 biogrid exp RPT5 DDI1 21627799 biogrid exp DDI1 SSB2 23332755 biogrid exp SSO1 DDI1 18562697,12925750 biogrid,i2d exp RNA15 DDI1 11283351 i2d,mint,intact,dip exp UBI4 DDI1 23105008,24709957,11323716,11805121,20059542,17082762,19620964,25703377 biogrid,mint,intact exp DDI1 Uncharacterized protein YJR141W 11283351 biogrid,i2d,mint,intact,dip exp CMK1 DDI1 16319894 biogrid,i2d exp BUB2 DDI1 10688190,11283351 biogrid,i2d,mint,intact,dip exp DDI1 RRP46 i2d exp DDI1 Uncharacterized isomerase YNR071C 11283351 i2d,mint,intact,dip exp DDI1 RPN11 20170199,21627799,18757749 biogrid exp HSP82 DDI1 19536198 intact exp DDI1 RPN9 12051757 biogrid exp DDI1 TLG1 12925750 biogrid exp DDI1 RRP6 i2d exp RPN1 DDI1 22815701,22318722,21627799,15964793 biogrid exp DDI1 RUB1 23105008 biogrid exp DDI1 PMT4 16429126 intact exp HO DDI1 22815701,15964793 biogrid exp PHO81 DDI1 18035052 biogrid exp SNC2 DDI1 10330187,12925750, 23023127 biogrid exp, pred ATG12 DDI1 14690591, 23023127 intact exp, pred DDI1 DDI1 18562697,17010377,18719252, 23023127 biogrid,intact exp, pred DDI1 TLG2 12925750, 23023127 biogrid exp, pred DDI1 MPP6 16554755, 23023127 biogrid,i2d,mint,intact exp, pred RPN12 DDI1 15964793, 23023127 biogrid exp, pred RAD23 DDI1 11700052,11805121,16405905, 23023127 biogrid,dip exp, pred DDI1 DSK2 23023127 pred DDI1 UBX5 23023127 pred UBP14 DDI1 23023127 pred DDI1 CUE3 23023127 pred SHP1 DDI1 23023127 pred DDI1 UBI4 23023127 pred UBX7 DDI1 23023127 pred DDI1 UBX6 23023127 pred DDI1 UBX4 23023127 pred

PPI - iRefIndex UniProt A UniProt B Method PMID Interaction Type Edge type Num Participants P40087 P47172 - 11283351 - X 2 P40087 P32867 - 12925750 - X 2 P40087 P53757 - 11283351 - X 2 P40087 - 12925750 - C 6 P26448 P40087 - 10688190 - X 2 P26448 P40087 - 11283351 - X 2 P40087 P25299 - 11283351 - X 2 Q04511 P40087 affinity chromatography technology 22815701 physical association X 2 Q04511 P40087 affinity chromatography technology 22815701 physical association X 2 Q04511 P40087 two hybrid 16478980 direct interaction X 2 Q04511 P40087 affinity chromatography technology 16478980 physical association X 2 Q04511 P40087 pull down 16478980 direct interaction X 2 P40087 P38764 affinity chromatography technology 22318722 physical association X 2 P40087 Q12018 affinity chromatography technology 22815701 physical association X 2 P40087 P38764 affinity chromatography technology 22815701 physical association X 2 P40087 Q12018 affinity chromatography technology 22815701 physical association X 2 P40087 P38764 affinity chromatography technology 22815701 physical association X 2 P40087 P09932 affinity chromatography technology 22815701 physical association X 2 P40087 P31109 affinity chromatography technology 10330187 physical association X 2 P40087 P33328 affinity chromatography technology 10330187 physical association X 2 P40087 P33328 two hybrid 10330187 direct interaction X 2 P40087 P32867 affinity chromatography technology 12925750 physical association X 2 P40087 P32867 pull down 12925750 direct interaction X 2 P40087 P31109 affinity chromatography technology 12925750 physical association X 2 P40087 P33328 affinity chromatography technology 12925750 physical association X 2 P40087 Q03322 affinity chromatography technology 12925750 physical association X 2 P40087 P09932 affinity chromatography technology 15964793 physical association X 2 P40087 P38764 affinity chromatography technology 15964793 physical association X 2 P40087 P33297 pull down 21627799 direct interaction X 2 P40087 Q04062 affinity chromatography technology 12051757 physical association X 2 P40087 Q03919 x-ray crystallography 23105008 association X 2 P40087 P53725 affinity chromatography technology 16554755 physical association X 2 P40087 P47172 two hybrid 11283351 direct interaction X 2 P40087 P17442 two hybrid 18035052 direct interaction X 2 P40087 P40087 x-ray crystallography 17010377 association X 2 P40087 P40087 pull down 17010377 direct interaction X 2 P40087 P40087 two hybrid 18719252 direct interaction X 2 P40087 P40087 affinity chromatography technology 18562697 physical association X 2 P40087 P32867 affinity chromatography technology 18562697 physical association X 2 P40087 P38764 two hybrid 21627799 direct interaction X 2 P40087 P47172 two hybrid 11283351 direct interaction X 2 P26448 P40087 two hybrid 10688190 direct interaction X 2 P0CG63 P40087 two hybrid 11323716 direct interaction X 2 P0CG63 P40087 two hybrid 11805121 direct interaction X 2 P0CG63 P40087 affinity chromatography technology 23749301 physical association X 2 P0CG63 P40087 biochemical 23583075 association X 2 P0CG63 P40087 affinity chromatography technology 24709957 physical association X 2 P0CG63 P40087 affinity chromatography technology 17644757 physical association X 2 P0CG63 P40087 affinity chromatography technology 23793018 physical association X 2 P0CG63 P40087 pull down 17082762 direct interaction X 2 P0CG63 P40087 affinity chromatography technology 17082762 physical association X 2 P0CG63 P40087 x-ray crystallography 23105008 association X 2 P0CG63 P40087 pull down 11323716 direct interaction X 2 P0CG63 P40087 affinity chromatography technology 21983566 physical association X 2 P0CG63 P40087 affinity chromatography technology 12872131 physical association X 2 P0CG63 P40087 pull down 19620964 direct interaction X 2 P0CG63 P40087 affinity chromatography technology 21427232 physical association X 2 P0CG63 P40087 affinity chromatography technology 14557538 physical association X 2 P0CG63 P40087 affinity chromatography technology 22106047 physical association X 2 P32496 P40087 affinity chromatography technology 15964793 physical association X 2 P32628 P40087 two hybrid 11805121 direct interaction X 2 P32628 P40087 two hybrid 11700052 direct interaction X 2 P32628 P40087 affinity chromatography technology 11700052 physical association X 2 P32628 P40087 biochemical 11700052 colocalization X 2 P32628 P40087 pull down 16405905 direct interaction X 2 P40087 P38886 affinity chromatography technology 22815701 physical association X 2 P40087 P35997 affinity chromatography technology 22815701 physical association X 2 P40087 Q08144 affinity chromatography technology 12925750 physical association X 2 P40087 P40150 biochemical 23332755 association X 2 P40087 P43588 affinity chromatography technology 18757749 physical association X 2 P40087 P43588 affinity chromatography technology 20170199 physical association X 2 P40087 P43588 affinity chromatography technology 21627799 physical association X 2 P27466 P40087 enzymatic study 16319894 direct interaction X 2 P40087 P47172 two hybrid pooling approach 11283351 physical association X 2 P40087 P47172 two hybrid pooling approach 11283351 physical association X 2 P40087 P53757 two hybrid pooling approach 11283351 physical association X 2 P40087 P05759 molecular sieving 11323716 direct interaction X 2 P40087 P05759 two hybrid 11323716 direct interaction X 2 P40087 P05759 pull down 11323716 direct interaction X 2 P40087 P05759 two hybrid 11323716 direct interaction X 2 P40087 P05759 pull down 11323716 direct interaction X 2 P40087 P05759 classical fluorescence spectroscopy 11323716 direct interaction X 2 P40087 P05759 pull down 16007098 direct interaction X 2 P40087 P05759 two hybrid 11805121 direct interaction X 2 P40087 P05759 two hybrid 11323716 direct interaction X 2 P40087 P05759 two hybrid 11323716 direct interaction X 2 P26448 P40087 two hybrid pooling approach 11283351 physical association X 2 P26448 P40087 two hybrid 10688190 physical association X 2 P32628 P40087 two hybrid 11805121 physical association X 2 P40087 P25299 two hybrid pooling approach 11283351 physical association X 2 P40087 inferred by author 16554755 association C 18 P40087 P47172 two hybrid fragment pooling approach 11283351 physical association X 2 P40087 P53757 two hybrid fragment pooling approach 11283351 physical association X 2 P40087 P47172 two hybrid fragment pooling approach 11283351 physical association X 2 P40087 P53725 tandem affinity purification 16554755 physical association X 2 P40087 P47138 tandem affinity purification 19536198 association X 2 P40087 P11484 tandem affinity purification 19536198 association X 2 P40087 P02829 tandem affinity purification 19536198 association X 2 P38316 P40087 two hybrid array 14690591 physical association X 2 P40087 tandem affinity purification 16429126 association C 4 P26448 P40087 two hybrid 10688190 physical association X 2 P26448 P40087 two hybrid fragment pooling approach 11283351 physical association X 2 P0CG63 P40087 two hybrid 11323716 physical association X 2 P0CG63 P40087 pull down 17082762 physical association X 2 P0CG63 P40087 pull down 17082762 direct interaction X 2 P0CG63 P40087 two hybrid 20059542 physical association X 2 P40087 P25299 two hybrid fragment pooling approach 11283351 physical association X 2 P40087 P40087 two hybrid 18719252 physical association Y 1 P0CG48 P40087 pull down 20059542 direct interaction X 2 P0CG48 P40087 pull down 20059542 direct interaction X 2 P40087 P47172 two hybrid 11283351 - X 2 P40087 P47172 two hybrid 11283351 - X 2 P40087 P53757 two hybrid 11283351 - X 2 P26448 P40087 two hybrid 11283351 - X 2 P26448 P40087 two hybrid 10688190 - X 2 P40087 P25299 two hybrid 11283351 - X 2

PPI - HINT Gene A Gene B PMID Method Quality RPS31 DDI1 11805121 0018 LC UBI4 DDI1 20059542,11805121,23105008,11323716,11323716,11323716 0018,0018,0114,0004,0018,0096 LC PHO81 DDI1 18035052 0018 LC RNA15 DDI1 11283351,11283351,11283351 0018,0399,0398 HT BUB2 DDI1 11283351,11283351,10688190,11283351,10688190 0018,0399,0397,0398,0018 HT CMK1 DDI1 16319894 0415 LC RAD23 DDI1 11805121,11323716,11700052,11323716,11700052,11700052 0018,0004,0401,0018,0004,0018 LC SSO1 DDI1 12925750,12925750,12925750,12925750 0096,0405,0019,0004 LC SNC2 DDI1 10330187,10330187 0004,0018 LC ATG12 DDI1 14690591 0397 LC RPN1 DDI1 21627799 0018 LC DDI1 DDI1 18719252,27646017,17010377,17010377,27646017 0018,0096,0096,0114,0114 HT,LC DDI1 SSB2 23332755 0401 LC DDI1 P47172 11283351,11283351,11283351 0018,0399,0398 HT DDI1 P53757 11283351,11283351,11283351 0018,0399,0398 HT DDI1 RUB1 23105008 0114 LC DDI1 UFO1 16478980,16478980,16478980 0004,0096,0018 LC HSP82 DDI1 19536198 0676 HT RPS31 DDI1 11323716 0004 LC HO DDI1 15964793,22815701 0004,0004 LC UBI4 DDI1 25703377,11323716,19620964,11323716,17082762,24709957,14557538,11323716,17082762,27646017,22106047 0096,0004,0096,0018,0004,0004,0004,0096,0096,0096,0004 LC SSB1 DDI1 19536198 0676 HT SNC1 DDI1 10330187,12925750 0004,0004 LC RPN12 DDI1 15964793 0004 LC RAD23 DDI1 16405905,11323716,11700052,11323716,11700052,11700052 0096,0004,0401,0018,0004,0018 LC SSO1 DDI1 12925750,18562697,12925750,12925750,12925750 0096,0004,0405,0019,0004 LC RPT5 DDI1 21627799,21627799 0096,0004 LC SNC2 DDI1 10330187,10330187,12925750 0004,0018,0004 LC RPS27A DDI1 22815701 0004 LC RPN1 DDI1 15964793,22318722,22815701 0004,0004,0004 LC RPN10 DDI1 22815701 0004 LC DDI1 DDI1 27646017,17010377,18562697,17010377,27646017 0096,0096,0004,0114,0114 LC DDI1 SSB2 23332755 0401 LC DDI1 RPN11 20170199,21627799,18757749 0004,0004,0004 LC,HT DDI1 PMT4 16429126 0676 HT DDI1 JJJ3 19536198 0676 HT DDI1 MPP6 16554755,16554755 0676,0004 HT DDI1 CSL4 16554755 0363 HT DDI1 TLG1 12925750 0004 LC DDI1 RPN9 12051757 0004 LC DDI1 UFO1 16478980,16478980,16478980,22815701 0004,0096,0018,0004 LC DDI1 TLG2 12925750 0004 LC DDI1 CDC53 22815701 0004 LC

PPI - Mentha Protein A Protein B Gene A Gene B Score PMID P40087 O14641 DDI1 DVL2 0.332 27107014 P40087 P02829 DDI1 HSP82 0.126 19536198 P40087 P0CG47 DDI1 UBB 0.523 25703377 P40087 P32628 DDI1 RAD23 0.454 11323716,11805121,16405905,11700052 P53725 P40087 MPP6 DDI1 0.236 16554755 P40087 P09932 DDI1 HO 0.376 15964793,22815701 P40087 P38764 DDI1 RPN1 0.731 22815701,21627799,15964793,22318722 P61864 P40087 RPL40A DDI1 0.065 11323716,11805121 Q04511 P40087 UFO1 DDI1 0.765 22815701,16478980 P40087 P32867 DDI1 SSO1 0.569 18562697,12925750 P43588 P40087 RPN11 DDI1 0.396 20170199,21627799,18757749 P40087 P0CG63 DDI1 UBI4 0.964 11805121,27646017,17082762,20059542,19620964,24709957,11323716,25703377 P40087 P40087 DDI1 DDI1 0.905 27646017,17010377,18719252,18562697 P40087 P26448 DDI1 BUB2 0.472 10688190,11283351 P40087 P38886 DDI1 RPN10 0.21 22815701 P40087 P27466 DDI1 CMK1 0.183 16319894 P40087 P33328 DDI1 SNC2 0.454 12925750,10330187 P40087 P0CG48 DDI1 UBC 0.332 20059542 P40087 P11484 DDI1 SSB1 0.126 19536198 P40087 P25299 DDI1 RNA15 0.21 11283351 P40087 P31109 DDI1 SNC1 0.21 12925750 P40087 P32496 DDI1 RPN12 0.21 15964793 P40087 P33297 DDI1 RPT5 0.309 21627799 P40087 P35997 DDI1 RPS27A 0.21 22815701 P40087 P38316 DDI1 ATG12 0.126 14690591 P47138 P40087 JJJ3 DDI1 0.126 19536198 P47172 P40087 P47172 DDI1 0.416 11283351 Q03322 P40087 TLG1 DDI1 0.21 12925750 Q04062 P40087 RPN9 DDI1 0.21 12051757 Q08144 P40087 TLG2 DDI1 0.21 12925750 Q12018 P40087 CDC53 DDI1 0.376 22815701 Q8WTU0 P40087 DDI1 DDI1 0.332 27107014 P40150 P40087 SSB2 DDI1 0.126 23332755 P46971 P40087 PMT4 DDI1 0.126 16429126 P40087 P17442 DDI1 PHO81 0.309 18035052 P53859 P40087 CSL4 DDI1 0.126 16554755 P53757 P40087 P53757 DDI1 0.21 11283351