# Membrane Contact Sites in Proteostasis and ER Stress Response

**Authors:** Febe Vermue, Aysegul Sapmaz, Ilana Berlin

PMC · DOI: 10.1177/25152564251363050 · 2025-07-28

## TL;DR

This paper explores how membrane contact sites help maintain protein health and manage stress in cells, focusing on interactions between the endoplasmic reticulum and endolysosomes.

## Contribution

The paper introduces new insights into how membrane contact sites coordinate organelle interactions to manage protein quality and stress.

## Key findings

- Membrane contact sites facilitate communication between the endoplasmic reticulum and endolysosomes for protein quality control.
- ER-phagy and proteasomal degradation pathways are regulated through these specialized interfaces.
- Dysfunction in these processes is linked to diseases involving disrupted membrane homeostasis.

## Abstract

Execution of all cellular functions depends on a healthy proteome, whose maintenance requires multimodal oversight. Roughly a third of human proteins reside in membranes and thus present unique topological challenges with respect to biogenesis and degradation. To meet these challenges, eukaryotes have evolved organellar pathways of protein folding and quality control. Most transmembrane proteins originate in the endoplasmic reticulum (ER), where they are subject to surveillance and, if necessary, removal through either ER-associated proteasomal degradation (cytosolic pathway) or selective autophagy (ER-phagy; organellar pathway). In the latter case, ER cargoes are shuttled to (endo)lysosomes – the same organelles that degrade cell surface molecules via endocytosis. Here, we provide an overview of dynamic coordination between the ER and endolysosomes, with a focus on their engagement in specialized physical interfaces termed membrane contact sites (MCSs). We cover how cross-compartmental integration through MCSs allows biosynthetic and proteolytic organelles to fine-tune each other's membrane composition, organization, and dynamics and facilitates recovery from proteotoxic stress. Along the way, we highlight recent developments and open questions at the crossroads between organelle biology and protein quality control and cast them against the backdrop of factor-specific diseases associated with perturbed membrane homeostasis.

## Full-text entities

- **Genes:** ZNRF3 (zinc and ring finger 3) [NCBI Gene 84133] {aka BK747E2.3, RNF203}, DERL1 (derlin 1) [NCBI Gene 79139] {aka DER-1, DER1, derlin-1}, MOSPD2 (motile sperm domain containing 2) [NCBI Gene 158747], RNF26 (ring finger protein 26) [NCBI Gene 79102], STARD3 (StAR related lipid transfer domain containing 3) [NCBI Gene 10948] {aka CAB1, MLN64, es64}, HERC3 (HECT and RLD domain containing E3 ubiquitin protein ligase 3) [NCBI Gene 8916], ERN1 (endoplasmic reticulum to nucleus signaling 1) [NCBI Gene 2081] {aka IRE1, IRE1P, IRE1a, hIRE1p}, ATF6 (activating transcription factor 6) [NCBI Gene 22926] {aka ACHM7, ATF6A, ATP6alpha}, TOLLIP (toll interacting protein) [NCBI Gene 54472] {aka IL-1RAcPIP}, VAPA (VAMP associated protein A) [NCBI Gene 9218] {aka VAMP-A, VAP-33, VAP-A, VAP33, hVAP-33}, EREG (epiregulin) [NCBI Gene 2069] {aka EPR, ER, Ep}, SYVN1 (synoviolin 1) [NCBI Gene 84447] {aka DER3, HRD1}, VIM (vimentin) [NCBI Gene 7431], PI4K2A (phosphatidylinositol 4-kinase type 2 alpha) [NCBI Gene 55361] {aka NEDMSB, PI4KII, PIK42A}, CALR (calreticulin) [NCBI Gene 811] {aka CALR1, CRT, HEL-S-99n, RO, SSA, cC1qR}, RTN3 (reticulon 3) [NCBI Gene 10313] {aka ASYIP, HAP, NSPL2, NSPLII, RTN3-A1}, RAB27A (RAB27A, member RAS oncogene family) [NCBI Gene 5873] {aka GS2, HsT18676, RAB27, RAM}, SQSTM1 (sequestosome 1) [NCBI Gene 8878] {aka A170, DMRV, EBIAP, FTDALS3, NADGP, OSIL}, UBE2J1 (ubiquitin conjugating enzyme E2 J1) [NCBI Gene 51465] {aka CGI-76, HSPC153, HSPC205, HSU93243, NCUBE-1, NCUBE1}, UBE2J2 (ubiquitin conjugating enzyme E2 J2) [NCBI Gene 118424] {aka NCUBE-2, NCUBE2, PRO2121, UBC6}, EIF2AK3 (eukaryotic translation initiation factor 2 alpha kinase 3) [NCBI Gene 9451] {aka PEK, PERK, WRS}, ANXA1 (annexin A1) [NCBI Gene 301] {aka ANX1, LPC1}, USP15 (ubiquitin specific peptidase 15) [NCBI Gene 9958] {aka UNPH-2, UNPH4}, PTPN1 (protein tyrosine phosphatase non-receptor type 1) [NCBI Gene 5770] {aka PTP1B}, RAB2A (RAB2A, member RAS oncogene family) [NCBI Gene 5862] {aka LHX, RAB2}, ITCH (itchy E3 ubiquitin protein ligase) [NCBI Gene 83737] {aka ADMFD, AIF4, AIP4, NAPP1}, ATL3 (atlastin GTPase 3) [NCBI Gene 25923] {aka AT3, ATL-3, HSN1F}, AMFR (autocrine motility factor receptor) [NCBI Gene 267] {aka GP78, RNF45, SPG89}, CBLL2 (Cbl proto-oncogene like 2) [NCBI Gene 158506] {aka CT138, HAKAIL, ZNF645}, POMC (proopiomelanocortin) [NCBI Gene 5443] {aka ACTH, CLIP, LPH, MSH, NPP, OBAIRH}, VPS13C (vacuolar protein sorting 13 homolog C) [NCBI Gene 54832] {aka BLTP5C, PARK23}, HEY2 (hes related family bHLH transcription factor with YRPW motif 2) [NCBI Gene 23493] {aka CHF1, GRIDLOCK, GRL, HERP1, HESR2, HRT2}, RETREG1 (reticulophagy regulator 1) [NCBI Gene 54463] {aka FAM134B, JK-1, JK1}, SNX2 (sorting nexin 2) [NCBI Gene 6643] {aka TRG-9}, CFTR (CF transmembrane conductance regulator) [NCBI Gene 1080] {aka ABC35, ABCC7, CF, CFTR/MRP, MRP7, TNR-CFTR}, PSMD2 (proteasome 26S subunit ubiquitin receptor, non-ATPase 2) [NCBI Gene 5708] {aka P97, RPN1, S2, TRAP2}, MAPT (microtubule associated protein tau) [NCBI Gene 4137] {aka DDPAC, FTD1, FTDP-17, MAPTL, MSTD, MTBT1}, PDZD8 (PDZ domain containing 8) [NCBI Gene 118987] {aka IDDADF, LYVAC, PDZK8}, RNF167 (ring finger protein 167) [NCBI Gene 26001] {aka 5730408C10Rik, LP2254, RING105}, S100A11 (S100 calcium binding protein A11) [NCBI Gene 6282] {aka HEL-S-43, MLN70, S100C}, CCPG1 (cell cycle progression 1) [NCBI Gene 9236] {aka CPR8}, VAPB (VAMP associated protein B and C) [NCBI Gene 9217] {aka ALS8, VAMP-B, VAP-B}, RNF185 (ring finger protein 185) [NCBI Gene 91445], TEX264 (testis expressed 264, ER-phagy receptor) [NCBI Gene 51368] {aka ZSIG11}, GABARAP (GABA type A receptor-associated protein) [NCBI Gene 11337] {aka ATG8A, GABARAP-a, MM46}, RNF43 (ring finger protein 43) [NCBI Gene 54894] {aka RNF124, SSPCS, URCC}, BLOC1S1 (biogenesis of lysosomal organelles complex 1 subunit 1) [NCBI Gene 2647] {aka BLOS1, BORCS1, GCN5L1, MICoA, RT14}, ZFYVE27 (zinc finger FYVE-type containing 27) [NCBI Gene 118813] {aka PROTRUDIN, SPG33}, SEC62 (SEC62 preprotein translocation factor) [NCBI Gene 7095] {aka Dtrp1, HTP1, TLOC1, TP-1}, OSBP (oxysterol binding protein) [NCBI Gene 5007] {aka OSBP1}, EGFR (epidermal growth factor receptor) [NCBI Gene 1956] {aka ERBB, ERBB1, ERRP, HER1, NISBD2, NNCIS}, ARL8B (ARF like GTPase 8B) [NCBI Gene 55207] {aka ARL10C, Gie1}, CANX (calnexin) [NCBI Gene 821] {aka CNX, IP90, P90}, MAP1LC3A (microtubule associated protein 1 light chain 3 alpha) [NCBI Gene 84557] {aka ATG8E, LC3, LC3A, MAP1ALC3, MAP1BLC3}, CORO1C (coronin 1C) [NCBI Gene 23603] {aka HCRNN4}, LRRK1 (leucine rich repeat kinase 1) [NCBI Gene 79705] {aka OSMD, RIPK6, Roco1}, CBL (Cbl proto-oncogene) [NCBI Gene 867] {aka C-CBL, CBL2, FRA11B, NSLL, RNF55}, RAB7B (RAB7B, member RAS oncogene family) [NCBI Gene 338382] {aka RAB7}, TMCC1 (transmembrane and coiled-coil domain family 1) [NCBI Gene 23023]
- **Diseases:** degenerative disorders (MESH:D019636), inflammatory and metabolic diseases (MESH:D008659), ALS (MESH:D000690), cancer (MESH:D009369), ERAD (MESH:D055959), diabetes (MESH:D003920), neurological and neurodegenerative disorders (MESH:D020271), Alzheimer's (MESH:D000544), PD (MESH:D010300), mantle cell lymphoma (MESH:D020522), hereditary sensory neuropathy (MESH:D009477), obesity (MESH:D009765), ORCID iDs (MESH:C535742), multiple myeloma (MESH:D009101), rheumatoid arthritis (MESH:D001172)
- **Chemicals:** sphingolipids (MESH:D013107), Ca2+ (-), phosphatidylserine (MESH:D010718), calcium (MESH:D002118), cholesterol (MESH:D002784), Thioflavin T (MESH:C009462), 8-Anilino-naphthalene-1-sulfonic acid (MESH:C515594), lysine (MESH:D008239), PI (MESH:D010716), lipid (MESH:D008055), carbohydrates (MESH:D002241), Bortezomib (MESH:D000069286), acids (MESH:D000143), luminal (MESH:D010634)
- **Species:** Homo sapiens (human, species) [taxon 9606]
- **Mutations:** G216R, P56S, C28F, F508del, S100C

## Figures

3 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12304649/full.md

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Source: https://tomesphere.com/paper/PMC12304649