# Vps501 links sorting nexins to TORC1 regulation in budding yeast

**Authors:** Jacob H. Brock, Muhammad A. Rahman, Richard J. Chi

PMC · DOI: 10.1080/27694127.2022.2111151 · Autophagy Reports · 2022-10-12

## TL;DR

This paper identifies a new link between a yeast sorting nexin called Vps501 and the SEA complex, which regulates TORC1, a key controller of cell growth and metabolism.

## Contribution

The study reveals a novel functional and genetic connection between Vps501 and the SEA complex in budding yeast.

## Key findings

- Vps501 interacts with the SEA complex on the vacuolar membrane.
- Vps501 influences TORC1 regulation in budding yeast.
- The connection suggests a new regulatory pathway for autophagy initiation.

## Abstract

The lysosome in animal cells or the vacuole in plant and yeast cells serve as storage and/or recycling depots and their delimiting membranes host signaling events critical for starvation-induced cellular self-eating or macroautophagy/autophagy. Initiation of autophagy occurs when the Atg1 complex is formed and this process requires the inactivation of the target of rapamycin complex 1 (TORC1), a master regulator of cell growth and metabolism in all eukaryotes. In budding yeast, TORC1 localizes to two independent pools around the vacuolar membrane and in signaling endosomes juxtaposed to the vacuole. These pools are thought to exist independently of nutrient availability and target unique substrates using regulatory elements that are not well understood. One key upstream regulator of TORC1 is the SEA complex (GATOR complex in humans). The SEA complex is a multimeric eight-protein complex (Iml1/Sea1, Rtc1/Sea2, Mtc5/Sea3, Sea4, Seh1, Sec13, Npr2, Npr3) with both inhibiting and activating TORC1 domains, that resides on the vacuolar membrane. However, despite the discovery of the SEA complex over a decade ago, it is still not well understood. In our recent manuscript, we identified a genetic and functional connection between a novel yeast sorting nexin, Vps501, and the SEA complex.

ORF: open reading frame; PX: Phox homology; SEACIT: sea complex inhibitory domain; SNX: Sorting nexin; TORC1: target of rapamycin complex 1

## Linked entities

- **Genes:** VPS501 (sorting nexin family protein) [NCBI Gene 853953], Iml1 (Increased minichromosome loss 1) [NCBI Gene 38176], sea-1 (T-box transcription factor 18) [NCBI Gene 173710], RTCA (RNA 3'-terminal phosphate cyclase) [NCBI Gene 8634], sea-2 (Signal element on autosome protein 2) [NCBI Gene 173738], MTC5 (Mtc5p) [NCBI Gene 851706], sea3 (SEA complex subunit Sea3) [NCBI Gene 2541877], MIOS (meiosis regulator for oocyte development) [NCBI Gene 54468], SEH1L (SEH1 like nucleoporin) [NCBI Gene 81929], SEC13 (SEC13 homolog, nuclear pore and COPII component) [NCBI Gene 6396], NPR2 (natriuretic peptide receptor 2) [NCBI Gene 4882], NPR3 (natriuretic peptide receptor 3) [NCBI Gene 4883]
- **Proteins:** CRTC1 (CREB regulated transcription coactivator 1), ULK1 (unc-51 like autophagy activating kinase 1)

## Full-text entities

- **Genes:** KOG1 (ubiquitin-binding TORC1 subunit KOG1) [NCBI Gene 856593] {aka LAS24}, RTC1 (Rtc1p) [NCBI Gene 853982] {aka SEA2}, NPR2 (nitrogen permease regulating protein NPR2) [NCBI Gene 856647], VPS5 (sorting nexin 1) [NCBI Gene 854235] {aka GRD2, PEP10, VPT5}, SEA4 (Sea4p) [NCBI Gene 852170] {aka YBL103C-A}, VPS501 (sorting nexin family protein) [NCBI Gene 853953] {aka VIN1}, ATG13 (serine/threonine protein kinase regulatory subunit ATG13) [NCBI Gene 856315] {aka APG13}, IML1 (GTPase-activating protein IML1) [NCBI Gene 853603] {aka SEA1}, NPR3 (Npr3p) [NCBI Gene 856362] {aka RMD11}, SEC13 (GTPase-activating protein SEC13) [NCBI Gene 850905] {aka ANU3}, ATG1 (serine/threonine protein kinase ATG1) [NCBI Gene 852695] {aka APG1, AUT3, CVT10}, MTC5 (Mtc5p) [NCBI Gene 851706] {aka SEA3}, ATG8 (ubiquitin-like protein ATG8) [NCBI Gene 852200] {aka APG8, AUT7, CVT5}, SEH1 (Seh1p) [NCBI Gene 852778]
- **Chemicals:** PtdIns(3,5)P2 (MESH:C106336), PtdIns3P (MESH:C055525), rapamycin (MESH:D020123), lipid (MESH:D008055), nitrogen (MESH:D009584)
- **Species:** Homo sapiens (human, species) [taxon 9606], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932]

## Full text

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## Figures

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## References

1 references — full list in the complete paper: https://tomesphere.com/paper/PMC11864680/full.md

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Source: https://tomesphere.com/paper/PMC11864680