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 Rad23b Ufd1l 19182904 biogrid exp G G G G G G G G Vcp Ufd1l 12847084,10811609 biogrid exp, ortho G G G G G G G G Ufd1l Nploc4 10811609 biogrid,i2d exp, ortho G G G G G G G G Itpr1 Ufd1l 16103111 biogrid exp, ortho G G G G G G G G RGD1562456_predicted Ufd1l ortho Protein Ube3a Ufd1l ortho Sumo3 Ufd1l ortho G G G G G G G G Ppgb Ufd1l ortho G G G G G G G G Cfl1 Ufd1l ortho G G G G G G G G Vimp Ufd1l ortho G G G G G G G G Proteasome assembly chaperone 2 Ufd1l ortho G G G G G G G G Papolg_predicted Ufd1l ortho Arpc5l Ufd1l ortho G G G G G G G G Protein Tmem62 Ufd1l ortho Taf1c Ufd1l ortho LOC363332 Ufd1l ortho G G G G G G G G Vps33b Ufd1l ortho G G G G G G G G Psmd2 Ufd1l ortho G G G G G G G G Svip Ufd1l ortho G G G G G G G Hmox1 Ufd1l ortho G G G G G G G Asns Ufd1l ortho G G G G G G G RGD1305050_predicted Ufd1l ortho G G G G G G G G Protein Kcnk16, RCG41914, isoform CRA_b Ufd1l ortho Adrb2 Ufd1l ortho G Cd2ap Ufd1l ortho Nsfl1c Ufd1l ortho G G G G G G G G DEAH (Asp-Glu-Ala-His) box polypeptide 15 (Predicted), isoform CRA_b, Protein Dhx15 Ufd1l ortho Vcpip1 Ufd1l ortho Sh3kbp1 Ufd1l ortho G G G G G G G G Papola_predicted Ufd1l ortho G G G G G G G G Ufd1l Pdcd4 ortho G G G G G G G Faf1 Ufd1l ortho G G G G G G G G LOC100362710 Ufd1l ortho Degs1 Ufd1l ortho G G G G G G G G Ube2n Ufd1l ortho G G G G G G G G Tp53 Ufd1l ortho G G G G G G G G Ubxn10 Ufd1l ortho Ubc Ufd1l ortho Flnb_predicted Ufd1l ortho Cap1 Ufd1l ortho G G G G G G G G Hbs1l Ufd1l ortho G G G G G G G G Ngfr Ufd1l ortho Ubxd6_predicted Ufd1l ortho DPH5 homolog (S. cerevisiae), DPH5 homolog (S. cerevisiae), isoform CRA_b, Protein Dph5 Ufd1l ortho G G G G Stip1 Ufd1l ortho G G G G G G G G Yod1 Ufd1l ortho Psmd7_predicted Ufd1l ortho G G G G G G G G LOC312299 Ufd1l ortho G Uba2 Ufd1l ortho G G G G G G G G Protein Lrrk2 Ufd1l ortho Gars Ufd1l ortho G G G G G G G G Snx1 Ufd1l ortho G G G G G G G G Ufd1l Birc5 ortho G G Anapc2 protein, Anaphase promoting complex subunit 2, Protein Anapc2 Ufd1l ortho G G G G G G G G Nub1 Ufd1l ortho G G G G G G G G Rtcb Ufd1l ortho G G G G G G G G Erlin2 Ufd1l ortho G G G G G G G G Usp34 Ufd1l ortho G G G G G G G G Hspb1 Ufd1l ortho G G G G G G G Ubl4a Ufd1l ortho G G G G G G G G Nudt6 Ufd1l ortho G G G Ufd1l Ufd1l ortho G G G G G G G G Ptprf Ufd1l ortho G G G G G G G Foxp3 Ufd1l ortho Armc1 Ufd1l ortho Cav1 Ufd1l ortho G G G G G G F13a1 Ufd1l ortho G Chm Ufd1l ortho Unc45a Ufd1l ortho G G G G G G G G Nfkbia Ufd1l ortho G G G G G Btrc Ufd1l ortho G G G G G G G G Sept8 Ufd1l ortho G G G G G G G Mad2l1_predicted Ufd1l ortho G Mtmr12 Ufd1l ortho Sprtn Ufd1l ortho Ribosomal protein S6 kinase Ufd1l ortho G G G G G G G G Protein Mov10, RCG51996 Ufd1l ortho G G G G G Protein Txlna, Txlna protein Ufd1l ortho G G G G G G G G Plaa Ufd1l ortho G G G G G G G G Rae1 Ufd1l ortho Protein Shfm1, RCG28037 Ufd1l ortho G G G G G G G G Pphln1_predicted Ufd1l ortho G G G G G G G G Faf2 Ufd1l ortho Protein Ttc27, RCG61872, isoform CRA_c Ufd1l ortho G G G G G G G Gzmk Ufd1l ortho G G G G G G G G Mapre1 Ufd1l ortho G G G G G G G G

PPI - iRefIndex UniProt A UniProt B Method PMID Interaction Type Edge type Num Participants Q9ES53 Q9ES54 - 10811609 - X 2 Q9ES53 Q9ES54 - 10811609 - X 2 Q9ES53 P46462 affinity chromatography technology 12847084 physical association X 2 Q9ES53 P46462 affinity chromatography technology 10811609 physical association X 2 Q9ES53 P46462 affinity chromatography technology 10811609 physical association X 2 Q9ES53 P46462 affinity chromatography technology 10811609 physical association X 2 Q9ES53 P46462 biochemical 10811609 colocalization X 2 Q9ES53 Q4KMA2 affinity chromatography technology 19182904 physical association X 2 Q9ES53 Q9ES54 affinity chromatography technology 10811609 physical association X 2 Q9ES53 Q9ES54 affinity chromatography technology 10811609 physical association X 2 Q9ES53 affinity chromatography technology 16103111 physical association X 2 Q9ES53 pull down 11740563 association C 3 Q9ES53 affinity chromatography technology 10811609 association C 3 Q9ES53 anti bait coimmunoprecipitation 16103111 association C 4 Q9ES53 Q9ES54 affinity chromatography technology 10811609 association X 2 P55072 Q9ES53 pull down 16525503 direct interaction X 2 Q9ES53 pull down 15215856 association C 3

PPI - PINA Gene A Gene B Method Publications Species A Species B Interaction Type Source Database Interaction Identidiers Experimental Role(s) Interactor A Experimental Role(s) Interactor B Ufd1l Nploc4 MI:0004(affinity chromatography technology)|MI:0004(affinity chromatography technology) 10811609 taxid:10116(Rattus norvegicus) taxid:10116(Rattus norvegicus) MI:0915(physical association)|MI:0915(physical association) (biogrid)|(biogrid) BIOGRID_336146|BIOGRID_336148 prey|bait bait|prey Vcp Ufd1l MI:0004(affinity chromatography technology)|MI:0415(enzymatic study)|MI:0004(affinity chromatography technology)|MI:0004(affinity chromatography technology)|MI:0004(affinity chromatography technology) 10811609,12847084 taxid:10116(Rattus norvegicus) taxid:10116(Rattus norvegicus) MI:0915(physical association)|MI:0915(physical association)|MI:0915(physical association)|MI:0915(physical association)|MI:0403(colocalization) (biogrid)|(biogrid)|(biogrid)|(biogrid)|(biogrid) BIOGRID_336147|BIOGRID_335265|BIOGRID_336143|BIOGRID_336140|BIOGRID_336149 prey|bait|bait|bait|bait bait|prey|prey|prey|prey Rad23b Ufd1l MI:0004(affinity chromatography technology) 19182904 taxid:10116(Rattus norvegicus) taxid:10116(Rattus norvegicus) MI:0915(physical association) (biogrid) BIOGRID_334899 bait prey Itpr1 Ufd1l MI:0004(affinity chromatography technology) 16103111 taxid:10116(Rattus norvegicus) taxid:10116(Rattus norvegicus) MI:0915(physical association) (biogrid) BIOGRID_334638 bait prey

PPI - HINT Gene A Gene B PMID Method Quality VCP UFD1L 10811609,10811609,10811609 0006,0004,0401 LC UFD1L NPLOC4 10811609,10811609,10811609,10811609,10811609 0047,0071,0006,0019,0004 LC ITPR1 UFD1L 16103111 0004 LC VCP UFD1L 10811609,10811609,10811609,12847084 0006,0004,0401,0004 LC RAD23B UFD1L 19182904 0004 LC UFD1L NPLOC4 10811609,10811609,10811609,10811609,10811609 0047,0071,0006,0019,0004 LC

PPI - Mentha Protein A Protein B Gene A Gene B Score PMID Q9ES53 P29994 UFD1L ITPR1 0.21 16103111 Q9ES53 Q9BQE4 UFD1L VIMP 0.21 15215856 Q9ES53 P46462 UFD1L VCP 0.569 10811609,12847084 Q9ES53 P55072 UFD1L VCP 0.309 16525503 Q9ES54 Q9ES53 NPLOC4 UFD1L 0.376 10811609 Q9ES53 Q4KMA2 UFD1L RAD23B 0.21 19182904