Autophagy genes in biology and disease

H Yamamoto, S Zhang, N Mizushima - Nature Reviews Genetics, 2023 - nature.com
Macroautophagy and microautophagy are highly conserved eukaryotic cellular processes
that degrade cytoplasmic material in lysosomes. Both pathways involve characteristic …

The evolution of autophagy proteins–diversification in eukaryotes and potential ancestors in prokaryotes

S Zhang, Y Hama, N Mizushima - Journal of cell science, 2021 - journals.biologists.com
Autophagy is a degradative pathway for cytoplasmic constituents, and is conserved across
eukaryotes. Autophagy-related (ATG) genes have undergone extensive multiplications and …

Regulation of ER‐derived membrane dynamics by the DedA domain‐containing proteins VMP1 and TMEM41B

Y Hama, H Morishita, N Mizushima - EMBO reports, 2022 - embopress.org
The endoplasmic reticulum (ER) is a central hub for the biogenesis of various organelles
and lipid‐containing structures. Recent studies suggest that vacuole membrane protein 1 …

[HTML][HTML] Deep Learning-based structure modelling illuminates structure and function in uncharted regions of β-solenoid fold space

S Mesdaghi, RM Price, J Madine, DJ Rigden - Journal of Structural Biology, 2023 - Elsevier
Repeat proteins are common in all domains of life and exhibit a wide range of functions. One
class of repeat protein contains solenoid folds where the repeating unit consists of β-strands …

Systematic in silico discovery of novel solute carrier-like proteins from proteomes

G Gyimesi, MA Hediger - PLoS One, 2022 - journals.plos.org
Solute carrier (SLC) proteins represent the largest superfamily of transmembrane
transporters. While many of them play key biological roles, their systematic analysis has …

Cyanobacterial membrane dynamics in the light of eukaryotic principles

C Siebenaller, D Schneider - Bioscience Reports, 2023 - portlandpress.com
Intracellular compartmentalization is a hallmark of eukaryotic cells. Dynamic membrane
remodeling, involving membrane fission/fusion events, clearly is crucial for cell viability and …

Lipid transport from endoplasmic reticulum to autophagic membranes

T Osawa, K Matoba, NN Noda - Cold Spring Harbor …, 2022 - cshperspectives.cshlp.org
Autophagy is an intracellular degradation system involving de novo generation of
autophagosomes, which function as a transporting vesicle of cytoplasmic components to …

Evolution and insights into the structure and function of the DedA superfamily containing TMEM41B and VMP1

F Okawa, Y Hama, S Zhang, H Morishita… - Journal of cell …, 2021 - journals.biologists.com
ABSTRACT TMEM41B and VMP1 are endoplasmic reticulum (ER)-localizing multi-spanning
membrane proteins required for ER-related cellular processes such as autophagosome …

Established and emerging players in phospholipid scrambling: A structural perspective

HG Sebinelli, C Syska, A Čopič, G Lenoir - Biochimie, 2024 - Elsevier
The maintenance of a diverse and non-homogeneous lipid composition in cell membranes
is crucial for a multitude of cellular processes. One important example is transbilayer lipid …

Transmembrane proteins—Different anchoring systems

I Roterman, K Stapor… - … : Structure, Function, and …, 2024 - Wiley Online Library
Transmembrane proteins are active in amphipathic environments. To stabilize the protein in
such surrounding the exposure of hydrophobic residues on the protein surface is required …