Stefano Vanni
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View article: Molecular basis for cellular compartmentalization by an ancient membrane fission mechanism
Molecular basis for cellular compartmentalization by an ancient membrane fission mechanism Open
The emergence of cell compartmentalization depends on membrane fission to create the endomembrane compartments. In eukaryotes, membrane fission is commonly executed by ESCRT-III, a protein complex conserved in all domains of life. However,…
View article: ATG2A-mediated DAG transfer recruits DGAT2 for lipid droplet growth
ATG2A-mediated DAG transfer recruits DGAT2 for lipid droplet growth Open
Lipid droplet (LD) growth mechanisms and the roles of LD-associated lipid transfer proteins remain poorly understood. Here we show that the autophagy lipid transfer protein ATG2A has an anabolic role and promotes LD expansion by transferri…
View article: Dystonia-associated Torsins sustain CLCC1 function to promote membrane fusion of the nuclear envelope for NPC biogenesis
Dystonia-associated Torsins sustain CLCC1 function to promote membrane fusion of the nuclear envelope for NPC biogenesis Open
DYT1 early-onset dystonia is a severe, incurable disorder of the central nervous system caused by mutations in the gene encoding Torsin1A (Tor1A, DYT1). Torsins are ER-resident AAA+-ATPases implicated in lipid metabolism, nuclear pore comp…
View article: Toward a molecular logic of lipid droplet heterogeneity?
Toward a molecular logic of lipid droplet heterogeneity? Open
View article: The molecular mechanism of lipid uptake by membrane-anchored bridge-like lipid transfer proteins
The molecular mechanism of lipid uptake by membrane-anchored bridge-like lipid transfer proteins Open
Lipid transport by bridge-like lipid transfer proteins (BLTPs) is emerging as a key process in lipid and cellular metabolism in both physiological and pathological conditions. However, the precise mechanism of lipid transport by BLTPs has …
View article: A conserved mechanism of membrane fusion in nuclear pore complex assembly
A conserved mechanism of membrane fusion in nuclear pore complex assembly Open
The nuclear pore complex (NPC) forms a large channel that spans the double lipid bilayer of the nuclear envelope and is the central gateway for macromolecular transport between the nucleus and cytoplasm in eukaryotes. NPC biogenesis requir…
View article: A cold-inducible phospholipid—protein interaction in brown fat mitochondria optimizes thermogenic capacity
A cold-inducible phospholipid—protein interaction in brown fat mitochondria optimizes thermogenic capacity Open
Cold stress elicits dynamic remodeling of the mitochondrial lipidome in brown adipose tissue (BAT), marked by an increase in arachidonoyl–phosphatidylethanolamine (AA–PE). However, the function of membrane lipid rewiring in thermoregulator…
View article: TMEM170 family proteins are lipid scramblases that physically associate with bridge lipid transporters BLTP1/Csf1
TMEM170 family proteins are lipid scramblases that physically associate with bridge lipid transporters BLTP1/Csf1 Open
Bulk lipid transport between organelles has been proposed to involve the partnership between bridge lipid transport proteins and membrane-embedded lipid scramblases. However, for almost all BLTPs, such physical association has not been ful…
View article: Pex30-dependent membrane contact sites maintain ER lipid homeostasis
Pex30-dependent membrane contact sites maintain ER lipid homeostasis Open
In eukaryotic cells, communication between organelles and the coordination of their activities depend on membrane contact sites (MCS). How MCS are regulated under the dynamic cellular environment remains poorly understood. Here, we investi…
View article: Any1 is a phospholipid scramblase involved in endosome biogenesis
Any1 is a phospholipid scramblase involved in endosome biogenesis Open
Endosomes are central organelles in the recycling and degradation of receptors and membrane proteins. Once endocytosed, such proteins are sorted at endosomes into intraluminal vesicles (ILVs). The resulting multivesicular bodies (MVBs) the…
View article: Pex30-dependent membrane contacts sites maintain ER lipid homeostasis
Pex30-dependent membrane contacts sites maintain ER lipid homeostasis Open
In eukaryotic cells, communication between organelles and the coordination of their activities depend on membrane contact sites (MCS). How MCS are regulated under the dynamic cellular environment remains poorly understood. Here, we investi…
View article: Identifying and Characterizing Lipid-Binding Cavities in Lipid Transfer Proteins With CG-MD Simulations
Identifying and Characterizing Lipid-Binding Cavities in Lipid Transfer Proteins With CG-MD Simulations Open
View article: RNA Order Regulates Its Interactions with Zwitterionic Lipid Bilayers
RNA Order Regulates Its Interactions with Zwitterionic Lipid Bilayers Open
RNA-lipid interactions directly influence RNA activity, which plays a crucial role in the development of new applications in medicine and biotechnology. However, while specific preferential behaviors between RNA and lipid bilayers have bee…
View article: Amphipathic helices sense the inner nuclear membrane environment through lipid packing defects
Amphipathic helices sense the inner nuclear membrane environment through lipid packing defects Open
Summary Amphipathic helices (AHs) are ubiquitous protein motifs that modulate targeting to organellar membranes by sensing differences in bulk membrane properties. However, the adaptation between membrane-targeting AHs and the nuclear memb…
View article: Dietary control of peripheral adipose storage capacity through membrane lipid remodelling
Dietary control of peripheral adipose storage capacity through membrane lipid remodelling Open
Summary Complex genetic and dietary cues contribute to the development of obesity, but how these are integrated on a molecular level is incompletely understood. Here, we show that PPARγ supports hypertrophic expansion of adipose tissue via…
View article: Yop1 stability and membrane curvature generation propensity are controlled by its oligomerisation interface
Yop1 stability and membrane curvature generation propensity are controlled by its oligomerisation interface Open
The DP1 family of integral membrane proteins stabilize high membrane curvature in the endoplasmic reticulum and phagophores. Mutations in the human DP1 gene REEP1 are associated with Hereditary Spastic Paraplegia type 31 and distal heredit…
View article: RNA order regulates its interactions with zwitterionic lipid bilayers
RNA order regulates its interactions with zwitterionic lipid bilayers Open
RNA-lipid interactions directly influence RNA activity, which plays a crucial role in developing new applications in medicine and biotechnology. However, while specific preferential behaviors between RNA and lipid bilayers have been identi…
View article: A Coarse-Grained SPICA Makeover for Solvated and Bare Sodium and Chloride Ions
A Coarse-Grained SPICA Makeover for Solvated and Bare Sodium and Chloride Ions Open
Aqueous ionic solutions are pivotal in various scientific domains due to their natural prevalence and vital roles in biological and chemical processes. Molecular dynamics has emerged as an effective methodology for studying the dynamic beh…
View article: The conformational plasticity of structurally unrelated lipid transport proteins correlates with their mode of action
The conformational plasticity of structurally unrelated lipid transport proteins correlates with their mode of action Open
Lipid transfer proteins (LTPs) are key players in cellular homeostasis and regulation, as they coordinate the exchange of lipids between different cellular organelles. Despite their importance, our mechanistic understanding of how LTPs fun…
View article: Unbiased MD simulations identify lipid binding sites in lipid transfer proteins
Unbiased MD simulations identify lipid binding sites in lipid transfer proteins Open
The characterization of lipid binding to lipid transfer proteins (LTPs) is fundamental to understand their molecular mechanism. However, several structures of LTPs, and notably those proposed to act as bridges between membranes, do not pro…
View article: Rescaling protein-protein interactions improves Martini 3 for flexible proteins in solution
Rescaling protein-protein interactions improves Martini 3 for flexible proteins in solution Open
Multidomain proteins with flexible linkers and disordered regions play important roles in many cellular processes, but characterizing their conformational ensembles is difficult. We have previously shown that the coarse-grained model, Mart…
View article: Cryo-EM architecture of a near-native stretch-sensitive membrane microdomain
Cryo-EM architecture of a near-native stretch-sensitive membrane microdomain Open
View article: The conformational plasticity of structurally unrelated lipid transport proteins correlates with their mode of action
The conformational plasticity of structurally unrelated lipid transport proteins correlates with their mode of action Open
Supporting DATA files for "Conformational plasticity of structurally unrelated lipid transport proteins correlates with their mode of action". zenodo_simulation_starting_files_and_result_pdbs.zip contains input files for atomistic and coar…
View article: An acylated N-terminus and a conserved loop regulate the activity of the ABHD17 de-acylase
An acylated N-terminus and a conserved loop regulate the activity of the ABHD17 de-acylase Open
The dynamic addition and removal of long chain fatty acids modulates protein function and localization. The alpha/beta hydrolase domain-containing (ABHD) 17 enzymes remove acyl chains from membrane localized proteins such as the oncoprotei…
View article: Molecular dynamics simulations of intracellular lipid droplets: a new tool in the toolbox
Molecular dynamics simulations of intracellular lipid droplets: a new tool in the toolbox Open
Lipid droplets (LDs) are ubiquitous intracellular organelles with a central role in multiple lipid metabolic pathways. However, identifying correlations between their structural properties and their biological activity has proved challengi…
View article: Lipid scrambling is a general feature of protein insertases
Lipid scrambling is a general feature of protein insertases Open
Glycerophospholipids are synthesized primarily in the cytosolic leaflet of the endoplasmic reticulum (ER) membrane and must be equilibrated between bilayer leaflets to allow the ER and membranes derived from it to grow. Lipid equilibration…
View article: Unbiased MD simulations characterize lipid binding to lipid transfer proteins
Unbiased MD simulations characterize lipid binding to lipid transfer proteins Open
The molecular characterization of lipid binding to lipid transfer proteins (LTPs) is fundamental to the understanding of several aspects of their mechanistic mode of action. However, obtaining lipid-bound structures of LTPs is not straight…
View article: Pragmatic Coarse-Graining of Proteins: Models and Applications
Pragmatic Coarse-Graining of Proteins: Models and Applications Open
The molecular details involved in the folding, dynamics, organization, and interaction of proteins with other molecules are often difficult to assess by experimental techniques. Consequently, computational models play an ever-increasing ro…
View article: Improved Protein Model in SPICA Force Field
Improved Protein Model in SPICA Force Field Open
The previous version of the SPICA coarse-grained (CG) force field (FF) protein model focused primarily on membrane proteins and successfully reproduced the dimerization free energies of several transmembrane helices and stable structures o…
View article: Lipid scrambling is a general feature of protein insertases
Lipid scrambling is a general feature of protein insertases Open
Glycerophospholipids are synthesized primarily in the cytosolic leaflet of the endoplasmic reticulum (ER) membrane and must be equilibrated between bilayer leaflets to allow the ER and membranes derived from it to grow. Lipid equilibration…