# The accessory adapters FAF1, FAF2, and UBXN7 accelerate proteasomal degradation by increasing prior p97-mediated substrate unfolding

**Authors:** Matthias Kracht, Alexander Kröning, Johannes van den Boom, Pinki Gahlot, Sandra Koska, Leo Kiss, Hemmo Meyer

PMC · DOI: 10.1126/sciadv.aea7381 · 2026-03-06

## TL;DR

This study reveals how accessory proteins help the p97 complex unfold proteins more efficiently for degradation by the proteasome.

## Contribution

The study identifies how FAF1, FAF2, and UBXN7 enhance p97-mediated unfolding by positioning Ufd1 for efficient substrate loading.

## Key findings

- Accessory adapters FAF1, FAF2, and UBXN7 stimulate proteasomal degradation by increasing p97 unfolding rates.
- A helix-UBX segment in FAF1/2 tethers Ufd1's ubiquitin-binding module to p97, improving substrate loading.
- Disrupting the helix-Ufd1 interaction reduces degradation efficiency, confirming the role of accessory adapters.

## Abstract

The AAA-ATPase VCP/p97 with its adapter Ufd1-Npl4 unfolds ubiquitylated substrate proteins to prepare degradation in the proteasome; however, the function of critical accessory factors remains unclear. Here, we show in the mammalian system that efficient protein degradation in the proteasome requires accessory adapters that boost p97-mediated unfolding likely by positioning Ufd1 for substrate loading. In a reaction that reconstitutes p97-Ufd1-Npl4–mediated unfolding coupled to proteasomal degradation, degradation was inefficient but stimulated by accessory adapters FAF1, FAF2, or UBXN7. Stimulation of proteasomal degradation was largely caused by an increase of p97 unfolding rates, conveyed by a helix-UBX segment in FAF1/2 that tethered the UT3 ubiquitin binding module of Ufd1 to the p97 N-domain. Mutations that abrogated the helix-Ufd1 interaction reduced stimulation of degradation, suggesting that accessory adapters position Ufd1 within the p97 complex to organize proficient substrate loading. Our results define the function of accessory adapters in mammals and highlight the complexity of substrate loading onto p97 for efficient substrate processing.

A group of accessory adapters positions the p97 adapter Ufd1 to boost substrate unfolding and subsequent proteasomal degradation.

## Linked entities

- **Genes:** FAF1 (Fas associated factor 1) [NCBI Gene 11124], FAF2 (Fas associated factor family member 2) [NCBI Gene 23197], UBXN7 (UBX domain protein 7) [NCBI Gene 26043], VCP (valosin containing protein) [NCBI Gene 7415], UFD1 (ubiquitin recognition factor in ER associated degradation 1) [NCBI Gene 7353], NPLOC4 (NPL4 homolog, ubiquitin recognition factor) [NCBI Gene 55666]
- **Proteins:** EIF4G2 (eukaryotic translation initiation factor 4 gamma 2), Slc14a1 (solute carrier family 14 member 1 (Kidd blood group))

## Full-text entities

- **Genes:** UBXN7 (UBX domain protein 7) [NCBI Gene 26043] {aka UBXD7}, CDC48 (AAA family ATPase CDC48) [NCBI Gene 851431], Vcp (valosin containing protein) [NCBI Gene 269523] {aka 3110001E05, CDC48, p97, p97/VCP}, Ufd1 (ubiquitin recognition factor in ER-associated degradation 1) [NCBI Gene 22230] {aka Ufd1l}, FAF2 (Fas associated factor family member 2) [NCBI Gene 23197] {aka ETEA, UBXD8, UBXN3B}, Faf2 (Fas associated factor family member 2) [NCBI Gene 76577] {aka 2210404D11Rik, Ubxd8, mKIAA0887}, Ubxn7 (UBX domain protein 7) [NCBI Gene 224111] {aka A630090P18, Ubxd7, mKIAA0794}, TXN (thioredoxin) [NCBI Gene 7295] {aka TRDX, TRX, TRX1, TXN1, Trx80}, NPL4 (nuclear protein localization protein 4) [NCBI Gene 852468] {aka HRD4}, SENP2 (SUMO specific peptidase 2) [NCBI Gene 59343] {aka AXAM2, SMT3IP2}, UBE4B (ubiquitination factor E4B) [NCBI Gene 10277] {aka E4, HDNB1, UBOX3, UFD2, UFD2A}, PSMD4 (proteasome 26S subunit ubiquitin receptor, non-ATPase 4) [NCBI Gene 5710] {aka AF, AF-1, ASF, MCB1, Rpn10, S5A}, LYZ (lysozyme) [NCBI Gene 4069] {aka AMYLD5, LYZF1, LZM}, Rad23b (RAD23 homolog B, nucleotide excision repair protein) [NCBI Gene 19359] {aka 0610007D13Rik, HR23B, mHR23B, p58}, RAD23B (RAD23 nucleotide excision repair protein B) [NCBI Gene 5887] {aka HHR23B, HR23B, P58}, Hal (histidine ammonia lyase) [NCBI Gene 15109] {aka Hsd, his, histidase}, Alb (albumin) [NCBI Gene 11657] {aka Alb-1, Alb1, BCL001, BCL002, BPL001}, UFD1 (polyubiquitin-binding protein UFD1) [NCBI Gene 852939], Ikzf4 (IKAROS family zinc finger 4) [NCBI Gene 22781] {aka A630026H08Rik, Eos, Zfpn1a4, Znfn1a4}, UBE2L1 (ubiquitin conjugating enzyme E2 L1 (pseudogene)) [NCBI Gene 283556] {aka L-UBC, UBC4, UBCH7N3, UBCL, UBE2L7, UBE2L7P}, Faf1 (Fas-associated factor 1) [NCBI Gene 14084] {aka Dffrx, Fam}, NPLOC4 (NPL4 homolog, ubiquitin recognition factor) [NCBI Gene 55666] {aka NPL4}, ND1 (NADH dehydrogenase subunit 1) [NCBI Gene 4535] {aka MTND1}, UBC7 (E2 ubiquitin-conjugating protein UBC7) [NCBI Gene 855036] {aka DER2, QRI8}, EOS (eosinophilia, familial) [NCBI Gene 7908], VCP (valosin containing protein) [NCBI Gene 7415] {aka CDC48, FTDALS6, TERA, p97}, MELTF (melanotransferrin) [NCBI Gene 4241] {aka CD228, MAP97, MFI2, MTF1, MTf}, Dnah8 (dynein, axonemal, heavy chain 8) [NCBI Gene 13417] {aka ATPase, Dnahc8, Hst6.7b, P1-Loop}, UBI4 (ubiquitin) [NCBI Gene 850620] {aka SCD2, UB14}, FAF1 (Fas associated factor 1) [NCBI Gene 11124] {aka CGI-03, HFAF1s, UBXD12, UBXN3A, hFAF1}, UFD1 (ubiquitin recognition factor in ER associated degradation 1) [NCBI Gene 7353] {aka UFD1L}, Nploc4 (NPL4 homolog, ubiquitin recognition factor) [NCBI Gene 217365] {aka Npl4, mKIAA1499}
- **Chemicals:** ATP (MESH:D000255), CO2 (MESH:D002245), glutathione (MESH:D005978), ammonium acetate (MESH:C018824), arabinose (MESH:D001089), Sepharose (MESH:D012685), Tween 20 (MESH:D011136), KCl (MESH:D011189), perchloric acid (MESH:C576518), PI (MESH:D011419), PBS (-), Hepes (MESH:D006531), glycerol (MESH:D005990), penicillin (MESH:D010406), phenylmethylsulfonyl fluoride (MESH:D010664), Fluorescein (MESH:D019793), Lipofectamine 2000 (MESH:C086724), Hoechst 33342 (MESH:C017807), creatine-phosphate (MESH:D010725), Imidazole (MESH:C029899), bortezomib (MESH:D000069286), BpA (MESH:C006780), silver (MESH:D012834), DTT (MESH:D004229), biotin (MESH:D001710), SDS (MESH:D012967), SP (MESH:C000604007), MgCl2 (MESH:D015636), NaCl (MESH:D012965), salt (MESH:D012492), IRDye 800 (MESH:C427728), TCEP (MESH:C080938), E2 (MESH:D004958), EDTA (MESH:D004492), fluorescein-5-maleimide (MESH:C037041), chitin (MESH:D002686), p-benzoyl-l-phenylalanine (MESH:C488060), Triton X-100 (MESH:D017830), polyacrylamide (MESH:C016679), streptomycin (MESH:D013307)
- **Species:** Homo sapiens (human, species) [taxon 9606], Escherichia coli (E. coli, species) [taxon 562], Mus musculus (house mouse, species) [taxon 10090], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932]
- **Mutations:** V507A, L289A, glutamate at position 143, C with 30, C in 20, K508, V507, glycine-cysteine, K508A, R290A
- **Cell lines:** DE3 — Mus musculus (Mouse), Hybridoma (CVCL_B7HM), SH — Homo sapiens (Human), Neuroblastoma, Cancer cell line (CVCL_W974), insect — Trichoplusia ni (Cabbage looper), Spontaneously immortalized cell line (CVCL_C190), C57BL/6J — Mus musculus (Mouse), Transformed cell line (CVCL_C0MW), HeLa Kyoto — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_1922)

## Figures

5 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12965308/full.md

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Source: https://tomesphere.com/paper/PMC12965308