# MAGI3 deficiency unleashes β-catenin conformational change to drive metastatic progression and mTOR inhibitor resistance in ccRCC

**Authors:** Siyu Gu, Haibo Wang, Hua Liu, Yumeng Yang, Yu Guo, Pengyan Fa, Lijie Zhang, Yang Yang, Xuan Qi, Qiong Qin, Ran Song, Xiaomei Yang, Junqi He

PMC · DOI: 10.1038/s41419-026-08563-x · Cell Death & Disease · 2026-03-24

## TL;DR

MAGI3 deficiency promotes kidney cancer metastasis and drug resistance by altering β-catenin, suggesting a new treatment strategy combining mTOR and Wnt inhibitors.

## Contribution

Identifies MAGI3 as a metastasis suppressor and gatekeeper of β-catenin degradation in ccRCC, proposing a dual mTOR/Wnt inhibition strategy for resistant tumors.

## Key findings

- MAGI3 loss increases ccRCC invasion, migration, and metastasis in vitro and in vivo.
- MAGI3 stabilizes β-catenin degradation by modulating its conformation and phosphorylation.
- Combining Everolimus with XAV-939 improves outcomes in resistant ccRCC cells and correlates with MAGI3/β-catenin expression patterns.

## Abstract

Metastatic clear cell renal cell carcinoma (ccRCC) remains lethal due to therapy resistance, and while dysregulated Wnt/β-catenin signaling drives progression, its post-translational regulation is poorly understood. Through multi-omics analysis of TCGA/GEO datasets, we identified MAGI3 as a key metastasis suppressor in ccRCC. Functional validation revealed that MAGI3 loss enhances invasion, migration and metastatic potential in vitro and in vivo. Mechanistically, MAGI3 binds β-catenin’s C-terminus via PDZ domains, disrupting intramolecular N-terminus–ARM domain interactions to expose phosphorylation sites, thereby enabling GSK-3β–mediated β-catenin phosphorylation and ubiquitin-dependent degradation. Critically, low MAGI3 hyperactivates β-catenin and drives mTOR inhibitor resistance. Combining Everolimus with the Wnt inhibitor XAV-939 slashed viability and invasion in resistant cells. Clinically, patients whose tumors exhibited high MAGI3 and low β-catenin expression demonstrated significantly improved response to Everolimus therapy. In conclusion, MAGI3 is a critical gatekeeper of β-catenin destruction in ccRCC. Its loss defines a metastatic, therapy-resistant subtype targetable by dual mTOR/Wnt blockade. Therefore, MAGI3 expression may stratify patients for personalized therapy.

## Linked entities

- **Genes:** MAGI3 (membrane associated guanylate kinase, WW and PDZ domain containing 3) [NCBI Gene 260425], ctnnb1.S (catenin beta 1 S homeolog) [NCBI Gene 380441], GSK3B (glycogen synthase kinase 3 beta) [NCBI Gene 2932]
- **Proteins:** ctnnb1.S (catenin beta 1 S homeolog), GSK3B (glycogen synthase kinase 3 beta)
- **Chemicals:** Everolimus (PubChem CID 6442177), XAV-939 (PubChem CID 135418940)
- **Diseases:** clear cell renal cell carcinoma (MONDO:0005005)

## Full-text entities

- **Genes:** MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475] {aka FRAP, FRAP1, FRAP2, RAFT1, RAPT1, SKS}, IFNA1 (interferon alpha 1) [NCBI Gene 3439] {aka IFL, IFN, IFN-ALPHA, IFN-alphaD, IFNA13, IFNA@}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, CTRL (chymotrypsin like) [NCBI Gene 1506] {aka CTRL1}, TXK (TXK tyrosine kinase) [NCBI Gene 7294] {aka BTKL, PSCTK5, PTK4, RLK, TKL}, C3orf52 (chromosome 3 open reading frame 52) [NCBI Gene 79669] {aka HYPT15, TTMP}, CD44 (CD44 molecule (IN blood group)) [NCBI Gene 960] {aka CDW44, CSPG8, ECM-III, ECMR-III, H-CAM, HCELL}, ADH1C (alcohol dehydrogenase 1C (class I), gamma polypeptide) [NCBI Gene 126] {aka ADH3}, MIR20B (microRNA 20b) [NCBI Gene 574032] {aka MIRN20B, hsa-mir-20b, mir-20b}, MBL3P (mannose-binding lectin family member 3, pseudogene) [NCBI Gene 50639] {aka COLEC2, MBL}, MAGI3 (membrane associated guanylate kinase, WW and PDZ domain containing 3) [NCBI Gene 260425] {aka MAGI-3, dJ730K3.2}, CTNNB1 (catenin beta 1) [NCBI Gene 1499] {aka CTNNB, EVR7, MRD19, NEDSDV, armadillo}, EGF (epidermal growth factor) [NCBI Gene 1950] {aka HOMG4, URG}, VHL (von Hippel-Lindau tumor suppressor) [NCBI Gene 7428] {aka HRCA1, RCA1, VHL1, pVHL}, GSK3B (glycogen synthase kinase 3 beta) [NCBI Gene 2932], PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422] {aka L-VEGF, MVCD1, VEGF, VPF}, SKP1 (S-phase kinase associated protein 1) [NCBI Gene 6500] {aka EMC19, OCP-II, OCP2, SKP1A, TCEB1L, p19A}, APC (APC regulator of Wnt signaling pathway) [NCBI Gene 324] {aka BTPS2, DESMD, DP2, DP2.5, DP3, GS}, KITLG (KIT ligand) [NCBI Gene 4254] {aka DCUA, DFNA69, FPH2, FPHH, KL-1, Kitl}, CCND1 (cyclin D1) [NCBI Gene 595] {aka BCL1, D11S287E, PRAD1, U21B31}, MIR34C (microRNA 34c) [NCBI Gene 407042] {aka MIRN34C, miRNA34C, mir-34c}, EYA4 (EYA transcriptional coactivator and phosphatase 4) [NCBI Gene 2070] {aka CMD1J, DFNA10}, ZHX2 (zinc fingers and homeoboxes 2) [NCBI Gene 22882] {aka AFR1, RAF}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, POTEF (POTE ankyrin domain family member F) [NCBI Gene 728378] {aka A26C1B, POTE2alpha, POTEACTIN}, MUL1 (mitochondrial E3 ubiquitin protein ligase 1) [NCBI Gene 79594] {aka C1orf166, GIDE, MAPL, MULAN, RNF218}, AXIN1 (axin 1) [NCBI Gene 8312] {aka AXIN, CMDOH, PPP1R49}, SNAI1 (snail family transcriptional repressor 1) [NCBI Gene 6615] {aka SLUGH2, SNA, SNAH, SNAIL, SNAIL1, dJ710H13.1}, EPAS1 (endothelial PAS domain protein 1) [NCBI Gene 2034] {aka ECYT4, HIF2A, HLF, MOP2, PASD2, bHLHe73}, IL2 (interleukin 2) [NCBI Gene 3558] {aka IL-2, TCGF, lymphokine}
- **Diseases:** glioma (MESH:D005910), dislocation (MESH:D004204), weight loss (MESH:D015431), Cancer (MESH:D009369), mRCC (MESH:C538445), SCID (MESH:D053632), NOD (MESH:D020191), glioblastoma (MESH:D005909), RCC (MESH:D002292), colorectal, pancreatic, and breast cancers (MESH:D001943), chronic inflammatory disorders (MESH:D020277), inflammation (MESH:D007249), infection (MESH:D007239), ulcerated (MESH:D014456), inflammatory bowel disease (MESH:D015212), lethargy (MESH:D053609), PR (MESH:D004828), renal cancer lung metastases (MESH:D008175), tumorigenesis (MESH:D063646), urological malignancy (MESH:D014571), lung metastases (MESH:D009362), hepatocellular carcinoma (MESH:D006528), cervical cancer (MESH:D002583), renal tumors (MESH:D007680), pain (MESH:D010146), toxicity (MESH:D064420), colorectal cancer (MESH:D015179)
- **Chemicals:** paraffin (MESH:D010232), Formalin (MESH:D005557), glutathione (MESH:D005978), Belzutifan (MESH:C000720612), PBS (MESH:D007854), penicillin (MESH:D010406), H&amp;E (MESH:D006371), CO2 (MESH:D002245), hematoxylin (MESH:D006416), IWR-1-endo (MESH:C585534), EVE (MESH:D000068338), nitrogen (MESH:D009584), puromycin (MESH:D011691), XAV-939 (MESH:C544261), Water (MESH:D014867), IWR-1 (-), streptomycin (MESH:D013307), hydrogen (MESH:D006859), crystal violet (MESH:D005840), oxygen (MESH:D010100), CCK-8 (MESH:D012844), MG132 (MESH:C072553), PEI (MESH:D011094), paraformaldehyde (MESH:C003043), DAPI (MESH:C007293), eosin (MESH:D004801), CFP (MESH:C035346), alcohol (MESH:D000438), xylene (MESH:D014992), G418 (MESH:C010680)
- **Species:** Mycoplasma (genus) [taxon 2093], Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** T779A
- **Cell lines:** CVCL_0045 — Homo sapiens (Human), Transformed cell line (CVCL_K321), BL21 — Homo sapiens (Human), EBV-related Burkitt lymphoma, Cancer cell line (CVCL_M639), ACC- — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_6872), 769-P — Homo sapiens (Human), Renal cell carcinoma, Cancer cell line (CVCL_1050), 786-O — Homo sapiens (Human), Renal cell carcinoma, Cancer cell line (CVCL_1051), 293 T — Homo sapiens (Human), Transformed cell line (CVCL_0063), Cat# 300106 — Felis catus (Cat), Finite cell line (CVCL_XB61), 769 — Homo sapiens (Human), Urethral urothelial carcinoma, Cancer cell line (CVCL_0896), shMAGI3 — Mus musculus (Mouse), Hybridoma (CVCL_C6V6)

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## Figures

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## References

7 references — full list in the complete paper: https://tomesphere.com/paper/PMC13039909/full.md

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Source: https://tomesphere.com/paper/PMC13039909