Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: Flaviviruses, such as Dengue and Zika, are important human pathogens that enter cells via endocytosis and fuse their membrane with the late endosomal membrane in a pH-dependent manner. The envelope E protein, responsible for fusion, contains different domains, including the fusion peptide and a segment with a His residue acting as a pH sensor. A study using molecular dynamics demonstrated that this His-containing segment can bind to a complex membrane mimicking the late-endosomal one and potentially serve as a target for antiviral molecules against DENV virus and Flaviviruses in general.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2023)
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: Mammarenaviruses are important human pathogens worldwide, and this study discovers membrane-interacting protein domains through molecular dynamics simulations, providing guidance for finding antiviral molecules.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2022)
Article
Multidisciplinary Sciences
Serena L. Y. Teo, Joshua J. Rennick, Daniel Yuen, Hareth Al-Wassiti, Angus P. R. Johnston, Colin W. Pouton
Summary: Current understanding of cytosolic delivery mechanisms is limited due to conflicting reports and limited sensitivity in existing methods. The authors developed a highly sensitive SLEEQ assay and found that positively charged CPPs enhance cytosolic delivery through increased non-specific cell membrane association, rather than increased endosomal escape efficiency.
NATURE COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Harrison M. York, Kunaal Joshi, Charles S. Wright, Laura Z. Kreplin, Samuel J. Rodgers, Ullhas K. Moorthi, Hetvi Gandhi, Abhishek Patil, Christina A. Mitchell, Srividya Iyer-Biswas, Senthil Arumugam
Summary: Newly formed endosomes mature into early endosomes through shedding one protein and acquiring another. The trigger-and-convert mechanism driven by endosomal collisions and fusions governs timeliness in ensemble maturations. This study provides new insights into the inter-endosomal interactions that control the maturation process.
NATURE COMMUNICATIONS
(2023)
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: COVID-19, caused by SARS-CoV-2, is a global pandemic that has infected over 600 million people and caused more than 6 million deaths so far. Understanding the molecular details of the fusion mechanism will lead to the development of effective antiviral strategies.
Article
Biochemistry & Molecular Biology
Sophie L. Winter, Gonen Golani, Fabio Lolicato, Melina Vallbracht, Keerthihan Thiyagarajah, Samy Sid Ahmed, Christian Luechtenborg, Oliver T. Fackler, Britta Bruegger, Thomas Hoenen, Walter Nickel, Ulrich S. Schwarz, Petr Chlanda
Summary: During Ebola virus entry into host cells, the virus disassembles and releases the nucleocapsid into the cytosol. This process is driven by the weakening of viral protein 40 (VP40) interactions caused by low endosomal pH. The disassembly of VP40 acts as a molecular switch coupling viral matrix uncoating to membrane fusion.
Article
Multidisciplinary Sciences
Nika Marusic, Lado Otrin, Jonas Rauchhaus, Ziliang Zhao, Fotis L. Kyrilis, Farzad Hamdi, Panagiotis L. Kastritis, Rumiana Dimova, Ivan Ivanov, Kai Sundmacher
Summary: Biomimetic polymer/lipid hybrid compartments have great potential as substitutes for natural liposomes. This study explores the protein-free fusion of these semisynthetic membranes and finds that the membrane mixing of oppositely charged hybrids exceeds that of liposomes. The charge is not the sole determinant of the final adenosine triphosphate synthesis rate, and the fusion strategy can be used for the delivery of membrane proteins and the automation of synthetic cell assembly.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Lining Zheng, Sarith R. Bandara, Zhengzhong Tan, Cecilia Leal
Summary: RNA therapeutics show potential in treating genetic diseases. Lipid nanoparticles (LNPs) are effective RNA delivery systems, but improving their design is crucial for treating more diseases with high potency, specific targeting, and low side effects. Overcoming the challenge of releasing cargo from LNPs after endocytosis is a significant hurdle.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Plant Sciences
Erika Isono
Summary: ESCRTs, initially identified in yeast, play crucial roles in endosomal trafficking, cytokinesis, autophagy, viral budding, and other cellular events. Recent studies have highlighted their versatile functions in diverse organisms, emphasizing their significance in physiological processes.
PLANT AND CELL PHYSIOLOGY
(2021)
Article
Biology
Huan Bao
Summary: Nanodisc-ID utilizes nanodiscs and proximity labeling for the analysis of membrane protein-lipid and protein-protein interactions, demonstrating its versatility in characterizing a wide range of integral and peripheral membrane proteins.
COMMUNICATIONS BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Karin Stiasny, Iris Medits, Lena Rossbacher, Franz X. Heinz
Summary: Flaviviruses, transmitted by mosquitoes or ticks, are important human pathogens. Research has shown that these viruses use a "breathing" mechanism to enhance their adaptability and replication through interactions with the immune system and host factors, and a novel mechanism of antibody-mediated infection enhancement has been identified.
Article
Biology
Yasunori Mori, Koh-ichiro Takenaka, Yugo Fukazawa, Shigeo Takamori
Summary: The study reveals that a portion of the recycling pool bearing the endosomal Q-SNARE syntaxin 7 (Stx7) is preferentially mobilized for release during high-frequency repetitive stimulation, requiring actin polymerization and activation of the Ca2+/calmodulin signaling pathway. Endosomal membrane fusion involving Stx7 forms rapidly replenishing vesicles essential for synaptic responses to high-frequency repetitive stimulation, highlighting the functional diversities of endosomal SNAREs in generating distinct exocytic vesicles in presynaptic terminals.
COMMUNICATIONS BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Kun Qu, Zunlong Ke, Vojtech Zila, Maria Anders-Oesswein, Barbel Glass, Frauke Muecksch, Rainer Mueller, Carsten Schultz, Barbara Mueller, Hans-Georg Kraeusslich, John A. G. Briggs
Summary: The study found that MA rearranges between different hexameric lattices in the maturation process of HIV-1, binding with lipid extending out of the membrane in mature HIV-1. The data suggest that proteolytic maturation of HIV-1 assembles the viral capsid and repurposes the membrane-bound MA lattice for cell entry or post-entry function, resulting in the removal of up to 2500 lipids from the viral membrane.
Article
Chemistry, Medicinal
Beibei Wang, Changqing Zhong, D. Peter Tieleman
Summary: The COVID-19 pandemic has led to a global health crisis and significant societal and economic burden, with SARS-CoV-2 infecting far more people than SARS-CoV. This study used structural data and molecular dynamics simulations to examine the differences in morphology, structure, and dynamics of the envelopes of SARS-CoV and SARS-CoV-2. The models created in this research offer insights into the structure and behavior of the SARS virus envelopes and could be valuable for drug design and membrane fusion and fission processes.
JOURNAL OF CHEMICAL INFORMATION AND MODELING
(2022)
Article
Microbiology
Natividad Ruiz, Rebecca M. Davis, Sujeet Kumar
Summary: The process of transporting phospholipids to the outer membrane in Gram-negative bacteria, an essential step in envelope biogenesis, remains unclear. Through studying the AsmA-like clan in Escherichia coli, it was found that YhdP and its homologs TamB and YdbH play important roles in maintaining lipid homeostasis and growth in the outer membrane. These proteins are proposed to be the long-sought-after phospholipid transporters essential for outer membrane biogenesis.
Article
Biochemistry & Molecular Biology
Vicente Galiano, Jose Villalain
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2015)
Article
Biochemistry & Molecular Biology
Emmanuel Fajardo-Sanchez, Vicente Galiano, Jose Villalain
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2017)
Article
Biochemistry & Molecular Biology
Emmanuel Fajardo-Sanchez, Vicente Galiano, Jose Villalain
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2017)
Article
Biochemistry & Molecular Biology
Vicente Galiano, Jose Villalain
JOURNAL OF MEMBRANE BIOLOGY
(2016)
Article
Biochemistry & Molecular Biology
Jose Villalain
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2019)
Article
Biochemistry & Molecular Biology
Laureano E. Carpio, Jose Villalain
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2020)
Article
Biochemistry & Molecular Biology
Vicente Galiano, Jose A. Encinarz, Jose Villalainz
JOURNAL OF MEMBRANE BIOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: Procyanidins, including procyanidin trimer C1 (PC1), have various biological effects and potential health benefits. PC1 can interact with biomembranes, modulate their structure and dynamics, and interact with lipids and proteins due to its high lipid-water partition coefficient. Molecular dynamics simulations showed that PC1 tends to be located at the membrane interphase, partially exposed to water and reaching the hydrocarbon chains. PC1 has a tendency to spontaneously aggregate, forming high-order oligomers. These findings suggest that PC1's bioactive properties could be attributed to its effects on membranes, supporting its potential therapeutic applications.
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: Mammarenaviruses are important human pathogens worldwide, and this study discovers membrane-interacting protein domains through molecular dynamics simulations, providing guidance for finding antiviral molecules.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2022)
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: Bioactive furanocoumarins, a group of natural secondary metabolites common in higher plants, have been shown to have numerous biological properties. This study used molecular dynamics simulations to investigate the interaction between bergamottin (BGM), a furanocoumarin, and the biological membrane. The results suggest that BGM tends to locate in the middle of the hydrocarbon layer of the membrane, interacts with membrane lipids, and increases the fluidity of the membrane. These findings contribute to the understanding of the bioactive properties of BGM and its potential as a therapeutic molecule.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: COVID-19, caused by SARS-CoV-2, is a global pandemic that has infected over 600 million people and caused more than 6 million deaths so far. Understanding the molecular details of the fusion mechanism will lead to the development of effective antiviral strategies.
Article
Biochemistry & Molecular Biology
Jose Villalain
Summary: Labyrinthopeptins are ribosomally synthesized peptides with broad antiviral and antiallodynic activities. They interact with membrane phospholipids, modulating their biophysical properties and causing membrane destabilization. Our molecular dynamics study revealed that labyrinthopeptin A2 tends to be located at the membrane interface, interacting with phospholipids and cholesterol. Interestingly, it prefers to be surrounded by sphingomyelin and disrupts the organization of raft domains in the membrane. These findings suggest the potential of labyrinthopeptins as therapeutic molecules and provide new opportunities for medical advances.
CHEMISTRY AND PHYSICS OF LIPIDS
(2023)
Article
Biochemistry & Molecular Biology
Vicente Galiano, Jose Villalain
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2020)
Article
Biochemistry & Molecular Biology
Emmanuel Fajardo-Sanchez, Vicente Galiano, Jose Villalain
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2017)
Article
Biochemistry & Molecular Biology
Philipp Grad, Katarina Edwards, Lars Gedda, Victor Agmo Hernandez
Summary: This study investigates the effects of polyethylene glycol-(PEG) modified lipids and gangliosides on the Ca2+ induced interaction between liposomes composed of palmitoyl-oleoyl phosphatidylethanolamine (POPE) and palmitoyl-oleoyl phosphatidylserine (POPS) at physiological ionic strength. The results show that naked liposomes tend to adhere, rupture, and collapse on each other's surfaces upon addition of Ca2+, eventually resulting in the formation of large multilamellar aggregates and bilayer sheets. However, the presence of gangliosides or PEGylated lipids leads to the formation of small, long-lived bilayer fragments/disks. PEGylated lipids seem to be more effective than gangliosides at stabilizing these structures. The study suggests that direct liposome-liposome fusion is not the dominating process triggered by Ca2+ in the systems studied.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Saurabh Saraswat, Archana Chugh
Summary: Cell penetrating peptides (CPP) are important tools for intracellular delivery of molecules. In this study, a novel marine-derived CPP from Engraulis japonicus, called Engraulisin, was reported. Engraulisin demonstrated successful cellular uptake and selective antimicrobial activity against Methicillin-resistant Staphylococcus aureus (MRSA), making it a potential candidate for drug delivery.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Emanuela Efodili, Ashlynn Knight, Maryem Mirza, Cedric Briones, Il-Hyung Lee
Summary: This study demonstrates the spontaneous transfer of small membrane-bound peptides between a supported lipid bilayer and giant unilamellar vesicles in vitro. The transfer occurs through the formation of hemi-fusion stalks and is limited to small peptides due to the highly curved structure of the stalk. This system provides a synthetic platform for studying peptide trafficking between synthetic membranes.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Yueqi Niu, Si Jia Chen, Jeffery B. Klauda
Summary: Macrophage membranes in the activated state are more tightly packed, exhibit increased chain order across lipid species, and form specific lipid clusters. These findings provide physiologically accurate models for future computational studies of macrophage membranes and their proteins.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Niki Baccile, Vincent Chaleix, Ingo Hoffmann
Summary: This study measured the bending rigidity of self-assembled structures formed by a new biobased glucolipid bioamphiphile using neutron spin-echo (NSE) technology. The results showed that the bending rigidity of these structures is lower or higher compared to phospholipid membranes, providing a new theoretical basis for the application of these new molecular systems.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Alain Bolano Alvares, Pablo E. A. Rodriguez, Gerardo D. Fidelio
Summary: The behavior of amphiphilic molecules at the air/water interface was studied to evaluate the arrangement formed in a confined area. The surface properties of zwitterionic DPPC lipid and A beta(1-40) amyloid peptide in mixed films were investigated at different temperatures. DPPC undergoes a phase transition depending on temperature and lateral pressure, which allows for the study of its influence on amyloid structure formation.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Lukasz Plachta, Marzena Mach, Magdalena Kowalska, Pawel Wydro
Summary: Resveratrol, a popular phytoalexin found in grapes and red wine, has beneficial effects on the cardiovascular system, exhibits antiviral, antibacterial, and antifungal properties, and may have therapeutic effects against cancer. This study investigates the interaction of resveratrol with model cell membranes, demonstrating changes in their physicochemical parameters and highlighting the role of cholesterol content in resveratrol incorporation. The findings suggest that the molecular mechanism of action of resveratrol may involve interactions with lipid rafts.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Edurne Rujas, Beatriz Apellaniz, Johana Torralba, David Andreu, Jose M. M. Caaveiro, Shixia Wang, Shan Lu, Jose L. Nieva
Summary: This study investigates the role of fusion peptide and Trp-rich membrane proximal external region in HIV-1 fusion and demonstrates that liposome-based formulations containing FP-MPER hybrid peptides can induce the production of specific neutralizing antibodies in rabbits. The results support the use of liposomes as vaccine carriers and the inclusion of lipid membranes in immunogens to elicit specific humoral responses.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Dailin Li, Dingyuan Shi, Lei Wang
Summary: G protein-gated inwardly rectifying potassium (GIRK) channels play a significant role in regulating cell excitability. This study investigated the ion permeation mechanism in GIRK2 mutants using molecular dynamic simulations and QM/MM methods. The results revealed the importance of a multi-ion distribution for ion conduction.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Max J. den Uijl, Arnold J. M. Driessen
Summary: Membrane protein insertion into and translocation across the bacterial cytoplasmic membrane are essential processes facilitated by the Sec translocon. The phospholipid dependence of membrane protein insertion has remained mostly unknown. This study reveals that the insertion of the mannitol permease MtlA into the membrane depends on the presence of phosphatidylglycerol and is stimulated by phosphatidylethanolamine.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Patrick Allen, Adam C. Smith, Vernon Benedicto, Abbas Abdulhasan, Vasanthy Narayanaswami, Enrico Tapavicza
Summary: We explore the stability, size, and structure of nanodiscs formed by the N-terminal domain of apolipoprotein E3 and a variable number of 1,2-dimyristoyl-sn-glycero-3-phosphocholine molecules. Our simulations suggest that nanodiscs containing 240 to 420 DMPC molecules are stable. The antiparallel configuration shows more protein-protein interactions and ionic contacts, as well as greater stability and rigidity compared to the parallel configuration.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Patrick M. Keating, Nicholas P. Schifano, Xinrui Wei, Matthew Y. Kong, Jinwoo Lee
Summary: Lassa virus (LASV) infection is dependent on the fusion of its viral membrane with the host cell membrane, and our study reveals that this fusion process involves pH-dependent conformational changes in the transmembrane domain of LASV. These findings provide valuable insights into the fusion mechanism of LASV and can be utilized in the design of therapeutics to combat Lassa virus infections and prevent its potential spread.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Ashley L. Bennett, Kristen N. Cranford, Austin L. Bates, Christopher R. Sabatini, Hee-Seung Lee
Summary: This study employed molecular dynamics simulations to elucidate the binding, folding, and insertion details of TP10W in the cell membrane. The simulations revealed that TP10W can translocate across the lipid membrane as a monomer, and the charged amino acid side chains can move between lipid leaflets. Comparison with point mutated variants demonstrated significant conformational changes due to charge distribution.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Jessica H. van Wonderen, Jason C. Crack, Marcus J. Edwards, Thomas A. Clarke, Gerhard Saalbach, Carlo Martins, Julea N. Butt
Summary: Electrogenic bacteria transfer excess respiratory electrons to metal oxide particles and electrodes through the MtrCAB complex. The crystal structure of MtrCAB from S. baltica OS185 was resolved, and liquid chromatography mass spectrometry was used to determine the mass values of the three proteins in purified MtrCAB complexes.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Review
Biochemistry & Molecular Biology
Yi-Ming Chen, Ching-Tai Lu, Chia-Wen Wang, Wolfgang B. Fischer
Summary: A series of dye ligands were ranked based on docking experiments, selecting the most suitable ligands for binding with different proteins. Additionally, a comparison study was conducted on a series of repurposing drugs and known antivirals.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)