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 TPK1 UBX4 16319894 biogrid,i2d exp RPT1 UBX4 24225956 biogrid exp BFA1 UBX4 16554755 intact exp PRE1 UBX4 i2d exp UBX4 Putative ISWI chromatin-remodeling complex subunit YPL216W 16554755 biogrid,i2d,mint,intact exp SSB2 UBX4 23332755 biogrid exp YCK2 UBX4 16319894 biogrid,i2d exp DOA1 UBX4 14755638 biogrid exp HMT1 UBX4 22997150 biogrid exp CDC48 UBX4 14755638,22940862,21211725,15258615,16554755,18719252, 23023127 biogrid,i2d,mint,intact exp, pred JSN1 UBX4 11283351, 23023127 biogrid,i2d,mint,intact,dip exp, pred UBX4 SMT3 15590687, 23023127 biogrid exp, pred UBX4 MDY2 23023127 pred YUH1 UBX4 23023127 pred SHP1 UBX4 23023127 pred UBX4 CUE4 23023127 pred UBC4 UBX4 23023127 pred UBC1 UBX4 23023127 pred SLA1 UBX4 23023127 pred UBP14 UBX4 23023127 pred CUE1 UBX4 23023127 pred UBX4 CUE5 23023127 pred UBP5 UBX4 23023127 pred UBX4 UBX5 23023127 pred UBC9 UBX4 23023127 pred UBP11 UBX4 23023127 pred DSK2 UBX4 23023127 pred UBX4 SYH1 23023127 pred CUE2 UBX4 23023127 pred BUD4 UBX4 23023127 pred UBX7 UBX4 23023127 pred ULP2 UBX4 23023127 pred UBX6 UBX4 23023127 pred RAD23 UBX4 23023127 pred UBX4 UBC7 23023127 pred UBX4 RUP1 23023127 pred GGA2 UBX4 23023127 pred DDI1 UBX4 23023127 pred RPT5 UBX4 23023127 pred

PPI - iRefIndex UniProt A UniProt B Method PMID Interaction Type Edge type Num Participants P54730 P47135 - 11283351 - X 2 P54730 P25694 affinity chromatography technology 22940862 physical association X 2 P54730 P25694 two hybrid 14755638 direct interaction X 2 P54730 P25694 affinity chromatography technology 14755638 physical association X 2 P54730 P25694 two hybrid 15258615 direct interaction X 2 P54730 P25694 two hybrid 15258615 direct interaction X 2 P54730 P25694 affinity chromatography technology 15258615 physical association X 2 P54730 P25694 pull down 15258615 direct interaction X 2 P54730 P40150 biochemical 23332755 association X 2 P54730 P25694 affinity chromatography technology 16554755 physical association X 2 P54730 Q08964 affinity chromatography technology 16554755 physical association X 2 P54730 P25694 two hybrid 18719252 direct interaction X 2 P54730 P25694 affinity chromatography technology 21211725 physical association X 2 P33299 P54730 affinity chromatography technology 24225956 physical association X 2 P23292 P54730 enzymatic study 16319894 direct interaction X 2 P54730 P36037 two hybrid 14755638 direct interaction X 2 P54730 Q12306 affinity chromatography technology 15590687 physical association X 2 P54730 P06244 enzymatic study 16319894 direct interaction X 2 P54730 P47135 two hybrid 11283351 direct interaction X 2 P38074 P54730 affinity chromatography technology 22997150 physical association X 2 P54730 P47135 two hybrid pooling approach 11283351 physical association X 2 P54730 inferred by author 16554755 association C 22 P54730 P25694 two hybrid 15258615 physical association X 2 P54730 P25694 anti tag coimmunoprecipitation 15258615 physical association X 2 P54730 P25694 pull down 15258615 physical association X 2 P54730 P25694 two hybrid 15258615 physical association X 2 P54730 P25694 tandem affinity purification 16554755 physical association X 2 P54730 P25694 tandem affinity purification 16554755 physical association X 2 P54730 P25694 tandem affinity purification 16554755 physical association X 2 P54730 Q08964 tandem affinity purification 16554755 physical association X 2 P54730 P25694 two hybrid 18719252 physical association X 2 P54730 P47135 two hybrid fragment pooling approach 11283351 physical association X 2 P54730 P47135 two hybrid 11283351 - X 2

PPI - HINT Gene A Gene B PMID Method Quality TPK1 UBX4 16319894 0415 LC YCK2 UBX4 16319894 0415 LC CDC48 UBX4 18719252,15258615,14755638,14755638,15258615,15258615,15258615 0018,0096,0018,0004,0004,0007,0018 HT,LC DOA1 UBX4 14755638 0018 LC SSB2 UBX4 23332755 0401 LC JSN1 UBX4 11283351,11283351,11283351 0018,0399,0398 HT CDC48 UBX4 21211725,15258615,14755638,14755638,22940862,15258615,16554755,15258615,15258615,16554755 0004,0096,0018,0004,0004,0004,0004,0007,0018,0676 LC,HT RPT1 UBX4 24225956 0004 LC HMT1 UBX4 22997150 0004 LC SSB2 UBX4 23332755 0401 LC BFA1 UBX4 16554755 0363 HT INO80 UBX4 26656161 0004 LC ARP5 UBX4 26656161 0004 LC UBX4 Q08964 16554755,16554755 0676,0004 HT UBX4 SMT3 15590687 0004 LC

PPI - Mentha Protein A Protein B Gene A Gene B Score PMID P54730 P53115 UBX4 INO80 0.21 26656161 Q12221 P54730 PUF2 UBX4 0.126 26668354 Q12306 P54730 SMT3 UBX4 0.126 15590687 P54730 P06244 UBX4 TPK1 0.183 16319894 P54730 P25694 UBX4 CDC48 0.943 15258615,18719252,21211725,16554755,14755638 P54730 P38074 UBX4 HMT1 0.126 22997150 P54730 P33299 UBX4 RPT1 0.21 24225956 P54730 P40150 UBX4 SSB2 0.126 23332755 P54730 P36037 UBX4 DOA1 0.309 14755638 P54730 P47113 UBX4 BFA1 0.126 16554755 P54730 P47135 UBX4 JSN1 0.354 11283351 P54730 P53946 UBX4 ARP5 0.21 26656161 Q08964 P54730 Q08964 UBX4 0.236 16554755