Table 1.
Overview of the baits and the outcome of the ProP‐PD selections
| Gene | Domain | Motifs found | Motifs in library | Observed motif | Expected motif |
|---|---|---|---|---|---|
| ANKRA2 | Ank | 2 | 4 | [LMP]xLPx[FIL] | PxLPx[IL] x{1,3}[VLF] |
| AP2B1 | Adaptin | 2 | 8 | [FW]xx[AFLP] | [DE]x{1,2} Fxx[FL] xxxR |
| CALM1 | EF‐hand | 0 | 19 | WxxL | [ACLIVTM]xx[ILVMFCT]Qxxx[RK] |
| CEP55 | EABR | 1 | 3 | PPxxxY | AxG PPx{2,3}Y |
| CLTC | Clathrin‐propeller | 0 | 9 | LIx[FW] | L[IVLMF]x[IVLMF] [DE] |
| CRK | SH3 | 2 | 11 | Px[LV]Px[KR] | PxxPx[KR] |
| EIF4E | eIF4E | 2 | 6 | – | YxxxxL[VILMF] |
| EPS15 | EH | 10 | 37 | NPF | NPF |
| KEAP1 | KELCH | 1 | 7 | TGE | [DNS]x[DES] [TNS]GE |
| KLC1 | TPR | 0 | 8 | – | [LMTAFSRI]xW[DE] |
| KPNA4 | Arm | 0 | 18 | KRxxx[DES] | Polybasic |
| KPNB1 | HEAT | 0 | 2 | [AILPV][FY]xF | FxF G |
| MAD2L1 | HORMA | 0 | 2 | – | [KR][IV][LV]xxxxxP |
| MAP1LC3A | Atg8 | 5 | 14 | [FWY]xx[ILV] | [EDST]x{0,2} [WFY]xx[ILV] |
| MAP1LC3B | Atg8 | 3 | 15 | [FHWY]xx[ILV] | [EDST]x{0,2} [WFYxx[ILV] |
| MDM2 | SWIB | 3 | 5 | FxxxWxxL | FxxxW xxx[VIL] |
| NEDD4 | WW4 | 2 | 8 | [LP]PxY | PPxY |
| OXSR1 | OSR1‐C | 4 | 6 | RFx[IV] | RFx[IV] |
| PABPC1 | PABP | 10 | 19 | AxxF[VY]P | [LFP][NS][PIVTAFL]x Axx[FY]x[PYLF] |
| PDCD6IP | Alix‐V‐domain | 0 | 0 | YPxL | [LM] YPx[LI] |
| PEX14 | Pex14 | 0 | 9 | [FLM]xxxW | Fxxx[WF] |
| PTK2 | Focal‐AT | 2 | 5 | – | [LV] [DE] x [LM] [LM]xxL |
| SIN3A | PAH | 1 | 6 | [FILMVW]xxL[LV] | [FHYM]xA[AV]x[VAC]L[MV]x[MI] |
| SPSB1 | SPRY | 0 | 1 | – | [ED][LIV]NNN |
| SUFU | SUFU | 0 | 2 | – | [SV][CY]GH[LIF][LAST][GAIV]. |
| SUMO1 | Rad60‐SLD | 6 | 29 | [IV]DLxxD | [VILPTM] [VIL][DESTVILMA][VIL] |
| TLN1 | PTB | 0 | 13 | Wxx[NS]x[IL] | NPx[FY] |
| TNKS | Ank | 2 | 16 | Rxx[AP]xG | R xx [PGAV] [DEIP] G |
| TSG101 | UEV | 1 | 10 | [AP][ST]AP | P[TS]AP |
| USP7 | MATH | 1 | 9 | [AP][GS]xS | [PA]xxS |
| VASP | EVH1 | 2 | 11 | [FW]PxP[LP] | [FYWL]PxPP |
| WDR5 | WD40 | 0 | 11 | – | [SCA]AR[STCA] |
| YAP1 | WW1 | 4 | 9 | [LP]PxY | PPxY |
| YES1 | SH3 | 0 | 5 | RxLPxxP | [RKY]xxPxxP |
| ZMYND11 | MYND | 0 | 2 | [MP]Px[LY] | PxL xP |
| GST | GST | – | – | – | – |
| DCUN1D1 | PONY | 0 | 2 | – | ^M[MIL]x[MIL] |
| SFN | 14‐3‐3 | 0 | 58 | – | LxIS |
| IRF3 | FHA | 0 | 3 | – | Rxx[ST]xP |
| CLIP1 | Cap‐Gly | 0 | 4 | – | xW[RK][DE]GCY$;[ED]x{0,2}[ED]x{0,2}[EDQ]x{0,1}[YF]$ |
Overview of the bait constructs screen in the current study, the number of validated motifs discovered in selection for each bait, the number of validated motifs present in the HD2 library, the enriched motif consensus in the peptides selected for each bait, and the expected consensus for each bait. Gray shaded area indicates baits used as negative controls. The bold and underlined characters indicate matches between the motifs reported in ELM and the motif generated based on ProP‐PD results. Sequence logos of the observed and expected motifs are available for comparison at http://slim.icr.ac.uk/data/proppd_hd2_pilot.