Article
Biochemistry & Molecular Biology
Uxue Ballesteros, Asier Etxaniz, Marina N. Iriondo, Yaiza R. Varela, Melisa Lazaro, Ana R. Viguera, L. Ruth Montes, Mikel Valle, Felix M. Goni, Alicia Alonso
Summary: This study explores the binding of LC3C to lipid vesicles, bilayers, and monolayers, as well as the protein-dependent perturbing effects, in the absence of mitochondrial lipid cardiolipin. The results suggest that lipidated LC3C can induce vesicle aggregation, lipid mixing, and release of vesicular aqueous contents, supporting its role in autophagosome elongation and fusion.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Article
Food Science & Technology
Chontida Tangsongcharoen, Jose L. Toca-Herrera, Boonhiang Promdonkoy, Sudarat Tharad
Summary: This study investigated the importance of the conserved T144 residue in the alpha D-beta 4 loop of Cyt2Aa2 protein for lipid binding on fluid lipid membranes. The results showed that replacing threonine with alanine hinders the binding of Cyt2Aa2 on liquid lipid membranes, providing a possibility to modify the protein to specific cells via lipid phase selection.
Review
Chemistry, Medicinal
Katsumi Matsuzaki
Summary: This review summarizes the major research carried out in the author's laboratory on how lipids and their inhomogeneous distributions regulate the structures and functions of antimicrobial peptides and Alzheimer's amyloid beta-protein. Also, how to detect transmembrane helix-helix and membrane protein-protein interactions and how they are modulated by lipids are discussed.
CHEMICAL & PHARMACEUTICAL BULLETIN
(2022)
Article
Spectroscopy
Haiyan Qi, Xiuwen Wang, Liqiang Su, Shu Wang, Ying Wang
Summary: The study determined the interaction between TM4 and TM2/TM3 domain of Slc11a1 using circular dichroism (CD) and fluorescence spectrum. Results suggested that cation transport process involves collaboration of multiple TM domains rather than TM4 alone. This finding proposed a possible transportation theory and could help elucidate the mechanism of Slc11a1 in cation transport process.
SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY
(2021)
Article
Biochemistry & Molecular Biology
Danxia Wu, Muhammad Saleem, Tengbing He, Guandi He
Summary: Plant responses to heavy metal stress involve three core signals (MAPK, calcium, abscisic acid) as well as other regulatory factors such as microRNAs and membrane proteins. Membrane proteins play an important role in regulating metal homeostasis by interacting with complex lipids in the plant cell environment. Possible interactions between membrane proteins, metal ions, and lipids are discussed to provide new insights into studying metal homeostasis in plant cells.
Editorial Material
Biochemistry & Molecular Biology
M. Joanne Lemieux, Michael Overduin
Summary: The field of membrane structural biology is rapidly evolving, with developments such as native nanodiscs and memteins changing the way we understand biological membranes. Tools like cryo-electron microscopy, X-ray crystallography, and nuclear magnetic resonance spectroscopy are advancing, but challenges remain in understanding how lipids and ligands interact at an atomic level.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2021)
Article
Biochemistry & Molecular Biology
Victor Vasquez-Montes, Andrew F. X. Goldberg, Damien Thevenin, Alexey S. Ladokhin
Summary: Accurate quantitative estimates of protein-membrane interactions are critical to studies of membrane proteins. Current thermodynamic analyses do not account for the effects of Ca2+ or Mg2+ on these interactions.
JOURNAL OF MOLECULAR BIOLOGY
(2022)
Article
Biology
Fatima El Alaoui, Ignacio Casuso, David Sanchez-Fuentes, Charlotte Arpin-Andre, Raissa Rathar, Volker Baecker, Anna Castro, Thierry Lorca, Julien Viaud, Stephane Vassilopoulos, Adrian Carretero-Genevrier, Laura Picas
Summary: Clathrin-mediated endocytosis (CME) is a central trafficking pathway in eukaryotic cells regulated by phosphoinositides. The study reveals the molecular dynamics of FCHo2 self-assembly on membranes, showing that it forms ring-like-shaped protein patches and enhances PI(4,5)P-2 clustering, leading to increased clathrin assembly.
Article
Biophysics
Rafael G. Oliveira, Mariana Paolorossi, Leide Passos Cavalcanti, Antonio Malfatti-Gasperini, Guillermo G. Montich
Summary: The study found that when beta 2GPI binds with anionic phospholipids, it forms a lamellar stacking with a periodicity, and the interactions between membranes mediated by beta 2GPI are favored when the membranes are in the liquid crystalline state.
COLLOIDS AND SURFACES B-BIOINTERFACES
(2021)
Article
Biochemistry & Molecular Biology
Sanjay Dharmavaram, Xinran Wan, Luigi E. Perotti
Summary: This research presents a new approach to model the mechanics of interacting particles on fluid membranes using a thin-shell finite element formulation based on subdivision surfaces. Unlike existing methods, this approach allows particles to move between elements of the finite element mesh, without the need for ad hoc constraints to anchor the particles to the surface.
Article
Biochemical Research Methods
Mohtadin Hashemi, Yuri L. Lyubchenko
Summary: A hybrid resolution molecular dynamics simulation method has been developed to investigate the interaction of amyloid proteins with lipid membranes, accelerating the aggregation propensity of amyloid proteins. This method allows for routine and accurate simulation of multi-protein and complex membrane systems, mimicking biologically relevant lipid membranes on microsecond time scales. It has been successfully applied to model the interactions of alpha-synuclein protein with a mixed lipid bilayer.
Article
Biochemical Research Methods
Sebastian Bittrich, Yana Rose, Joan Segura, Robert Lowe, John D. Westbrook, Jose M. Duarte, Stephen K. Burley
Summary: Membrane proteins, encoded by a significant portion of human genes, account for a majority of FDA-approved drug targets. The RCSB Protein Data Bank web portal has made recent improvements by integrating a wealth of new membrane protein annotations from external resources. These enhancements greatly enhance the presentation of membrane protein data and provide users with tools for searching and visualizing these proteins.
Article
Biochemical Research Methods
Jianfeng Sun, Arulsamy Kulandaisamy, Jinlong Ru, M. Michael Gromiha, Adam P. Cribbs
Summary: TMKit is an open-source Python programming interface specifically designed for processing transmembrane protein data. It includes tools for database wrangling, feature engineering, and protein-protein interaction visualization. Additionally, it offers the high-performance computing library seqNetRR for fast construction of residue connections and allocation of correlation matrix-based features. TMKit serves as a useful tool for researchers studying transmembrane protein sequences and structures.
BRIEFINGS IN BIOINFORMATICS
(2023)
Review
Biochemistry & Molecular Biology
Masanao Kinoshita, Nobuaki Matsumori
Summary: Ceramide is a precursor of sphingolipids and plays a role in various biological functions. It has been shown to induce the coalescence of lipid rafts, potentially explaining its biological activity. The content of ceramide and cholesterol in the signal platform can regulate the association and dissociation of membrane proteins and their inhibitors.
Article
Biochemistry & Molecular Biology
Maria C. C. Klaiss-Luna, Malgorzata Jemiola-Rzeminska, Kazimierz Strzalka, Marcela Manrique-Moreno
Summary: Host defense peptides are natural antimicrobial agents that have potential therapeutic use. LTX-315, a recently reported peptide, has shown promising oncolytic activity, but its interaction with membranes has not been well studied. This research investigated the interaction of LTX-315 with eukaryotic lipids using artificial systems, and found a strong interaction with phosphatidylserine. These findings contribute to the understanding and development of improved anticancer peptides.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Mattia Sacchi, Daniel Balleza, Giulia Vena, Giulia Puia, Paolo Facci, Andrea Alessandrini
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2015)
Article
Biochemistry & Molecular Biology
Daniel Balleza, Mattia Sacchi, Giulia Vena, Debora Galloni, Giulia Puia, Paolo Facci, Andrea Alessandrini
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2015)
Article
Physics, Fluids & Plasmas
Marco Pieruccini, Andrea Alessandrini
Article
Polymer Science
Marco Pieruccini, Andrea Alessandrini, Simone Sturniolo, Maurizio Corti, Attilio Rigamonti
POLYMER INTERNATIONAL
(2015)
Article
Polymer Science
Andrea Alessandrini, Paolo Facci
EUROPEAN POLYMER JOURNAL
(2016)
Editorial Material
Chemistry, Physical
Andrea Alessandrini, Marco Pieruccini, Elpidio Tombari
JOURNAL OF CHEMICAL PHYSICS
(2017)
Article
Multidisciplinary Sciences
Adriana Gallo, Rosaria Landi, Valentina Rubino, Alessandro Di Cerbo, Angela Giovazzino, Anna Teresa Palatucci, Sara Centenaro, Gianandrea Guidetti, Sergio Canello, Laura Cortese, Giuseppina Ruggiero, Andrea Alessandrini, Giuseppe Terrazzano
Article
Multidisciplinary Sciences
Alessandro Di Cerbo, Valentina Rubino, Francesca Morelli, Giuseppina Ruggiero, Rosaria Landi, Gianandrea Guidetti, Sergio Canello, Giuseppe Terrazzano, Andrea Alessandrini
SCIENTIFIC REPORTS
(2018)
Article
Biochemistry & Molecular Biology
Andrea Alessandrini, Gabriella Viero, Mauro Dalla Serra, Gilles Prevost, Paolo Facci
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2013)
Article
Biophysics
Andrea Alessandrini, Heiko M. Seeger, Tommaso Caramaschi, Paolo Facci
BIOPHYSICAL JOURNAL
(2012)
Article
Chemistry, Physical
Paolo Petrangolini, Andrea Alessandrini, Paolo Facci
JOURNAL OF PHYSICAL CHEMISTRY C
(2013)
Article
Chemistry, Multidisciplinary
S. Salameh, J. Schneider, Jens Laube, A. Alessandrini, P. Facci, J. W. Seo, L. Colombi Ciacchi, L. Maedler
Review
Microscopy
Andrea Alessandrini, Paolo Facci
Review
Chemistry, Physical
Andrea Alessandrini, Paolo Facci
Article
Multidisciplinary Sciences
Paola Ghisellini, Marialuisa Caiazzo, Andrea Alessandrini, Roberto Eggenhoffner, Massimo Vassalli, Paolo Facci
SCIENTIFIC REPORTS
(2016)