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The Journal of Biological Chemistry May 2023N-retinylidene-phosphatidylethanolamine (N-Ret-PE), the Schiff-base conjugate formed through the reversible reaction of retinal (Vitamin A-aldehyde) and...
N-retinylidene-phosphatidylethanolamine (N-Ret-PE), the Schiff-base conjugate formed through the reversible reaction of retinal (Vitamin A-aldehyde) and phosphatidylethanolamine, plays a crucial role in the visual cycle and visual pigment photoregeneration. However, N-Ret-PE can react with another molecule of retinal to form toxic di-retinoids if not removed from photoreceptors through its transport across photoreceptor membranes by the ATP-binding-cassette transporter ABCA4. Loss-of-function mutations in ABCA4 are known to cause Stargardt disease (STGD1), an inherited retinal degenerative disease associated with the accumulation of fluorescent di-retinoids and severe loss in vision. A larger assessment of retinal-phospholipid Schiff-base conjugates in photoreceptors is needed, along with further investigation of ABCA4 residues important for N-Ret-PE binding. In this study we show that N-Ret-PE formation is dependent on pH and phospholipid content. When retinal is added to liposomes or photoreceptor membranes, 40 to 60% is converted to N-Ret-PE at physiological pH. Phosphatidylserine and taurine also react with retinal to form N-retinylidene-phosphatidylserine and N-retinylidene-taurine, respectively, but at significantly lower levels. N-retinylidene-phosphatidylserine is not a substrate for ABCA4 and reacts poorly with retinal to form di-retinoids. Additionally, amino acid residues within the binding pocket of ABCA4 that contribute to its interaction with N-Ret-PE were identified and characterized using site-directed mutagenesis together with functional and binding assays. Substitution of arginine residues and hydrophobic residues with alanine or residues implicated in STGD1 significantly reduced or eliminated substrate-activated ATPase activity and substrate binding. Collectively, this study provides important insight into conditions which affect retinal-phospholipid Schiff-base formation and mechanisms underlying the pathogenesis of STGD1.
Topics: Humans; ATP-Binding Cassette Transporters; Phosphatidylserines; Phospholipids; Retinoids; Stargardt Disease
PubMed: 36931393
DOI: 10.1016/j.jbc.2023.104614 -
Nature Communications Aug 2023Chloride channels (CLCs) transport anion across membrane to regulate ion homeostasis and acidification of intracellular organelles, and are divided into anion channels...
Chloride channels (CLCs) transport anion across membrane to regulate ion homeostasis and acidification of intracellular organelles, and are divided into anion channels and anion/proton antiporters. Arabidopsis thaliana CLCa (AtCLCa) transporter localizes to the tonoplast which imports NO and to a less extent Cl from cytoplasm. The activity of AtCLCa and many other CLCs is regulated by nucleotides and phospholipids, however, the molecular mechanism remains unclear. Here we determine the cryo-EM structures of AtCLCa bound with NO and Cl, respectively. Both structures are captured in ATP and PI(4,5)P bound conformation. Structural and electrophysiological analyses reveal a previously unidentified N-terminal β-hairpin that is stabilized by ATP binding to block the anion transport pathway, thereby inhibiting the AtCLCa activity. While AMP loses the inhibition capacity due to lack of the β/γ- phosphates required for β-hairpin stabilization. This well explains how AtCLCa senses the ATP/AMP status to regulate the physiological nitrogen-carbon balance. Our data further show that PI(4,5)P or PI(3,5)P binds to the AtCLCa dimer interface and occupies the proton-exit pathway, which may help to understand the inhibition of AtCLCa by phospholipids to facilitate guard cell vacuole acidification and stomatal closure. In a word, our work suggests the regulatory mechanism of AtCLCa by nucleotides and phospholipids under certain physiological scenarios and provides new insights for future study of CLCs.
Topics: Arabidopsis; Nucleotides; Protons; Nitrates; Phospholipids; Arabidopsis Proteins; Anions; Adenosine Triphosphate; Chloride Channels
PubMed: 37573431
DOI: 10.1038/s41467-023-40624-z -
Biochimica Et Biophysica Acta.... Oct 2020The plasma membrane phospholipid distribution of animal cells is markedly asymmetric. Phosphatidylserine (PS) and phosphatidylethanolamine (PE) are concentrated in the... (Review)
Review
The plasma membrane phospholipid distribution of animal cells is markedly asymmetric. Phosphatidylserine (PS) and phosphatidylethanolamine (PE) are concentrated in the inner leaflet, whereas phosphatidylcholine (PC) and sphingomyelin (SM) are concentrated in the outer leaflet. This non-equilibrium situation is maintained by lipid pumps (flippases or floppases), which utilize energy in the form of ATP to translocate lipids from one leaflet to the other. Scramblases, which are activated when physiologically required, transport lipids in both directions across the membrane and can abolish lipid asymmetry. Lipid asymmetry also causes imbalances in the areas occupied by lipid in the two membrane leaflets, contributing to membrane curvature. The asymmetry of PS across the plasma membrane plays a crucial signalling role in numerous physiological processes. Exposure of PS on the external surface of blood platelets stimulates blood coagulation. PS exposure by other cells during apoptosis provides an "eat me" signal to surrounding macrophages. Many peripheral and integral membrane proteins have polybasic PS-binding domains on their cytoplasmic surfaces which either provide a membrane anchor or affect activity. These domains can also determine trafficking within the cell and control regulation via an electrostatic switch mechanism, as well as potentially acting as "death sensors" when cytoplasmic PS is transferred to the extracellular leaflet during apoptosis. Apart from these physiological roles, external PS exposure by microorganisms, viruses and cancer cells allows them to mimic the immunosuppressive anti-inflammatory action of apoptotic cells and proliferate, thus providing a strong medical motivation for future research in the field of lipid asymmetry in membranes.
Topics: Animals; Cell Membrane; Humans; Phospholipids; Signal Transduction
PubMed: 32511979
DOI: 10.1016/j.bbamem.2020.183382 -
Cell Research Dec 2020In Gram-negative bacteria, phospholipids are major components of the inner membrane and the inner leaflet of the outer membrane, playing an essential role in forming the...
In Gram-negative bacteria, phospholipids are major components of the inner membrane and the inner leaflet of the outer membrane, playing an essential role in forming the unique dual-membrane barrier to exclude the entry of most antibiotics. Understanding the mechanisms of phospholipid translocation between the inner and outer membrane represents one of the major challenges surrounding bacterial phospholipid homeostasis. The conserved MlaFEDB complex in the inner membrane functions as an ABC transporter to drive the translocation of phospholipids between the inner membrane and the periplasmic protein MlaC. However, the mechanism of phospholipid translocation remains elusive. Here we determined three cryo-EM structures of MlaFEDB from Escherichia coli in its nucleotide-free and ATP-bound conformations, and performed extensive functional studies to verify and extend our findings from structural analyses. Our work reveals unique structural features of the entire MlaFEDB complex, six well-resolved phospholipids in three distinct cavities, and large-scale conformational changes upon ATP binding. Together, these findings define the cycle of structural rearrangement of MlaFEDB in action, and suggest that MlaFEDB uses an extrusion mechanism to extract and release phospholipids through the central translocation cavity.
Topics: Adenosine Triphosphate; Cryoelectron Microscopy; Escherichia coli; Escherichia coli Proteins; Models, Biological; Models, Molecular; Phospholipids; Protein Binding; Protein Structure, Secondary; Protein Subunits
PubMed: 32884137
DOI: 10.1038/s41422-020-00404-6 -
Journal of Dairy Science Feb 2021In this study dairy phospholipid (PL) gels were made using 3 different concentrations of PL (15%, 30%, and 45%) and soybean oil to determine the gel-forming ability and...
In this study dairy phospholipid (PL) gels were made using 3 different concentrations of PL (15%, 30%, and 45%) and soybean oil to determine the gel-forming ability and functional traits that dairy PL have. After 24 h of storage the visual stability, crystal morphology, solid fat content, melting behavior, viscosity, and oil binding capacity of the gels were evaluated. All samples showed visual stability, whereas polarized light microscopy showed that high concentrations of PL reduced PL mobility, preventing tubular micelles from forming at high concentrations of PL (45%). Solid fat content increased with an increase in PL concentration. The melting enthalpy increased as the concentration of PL increased. The viscosity was assessed at 0.01, 0.1, and 1.0 1/s shear rates. A significant difference was observed between the 45% PL samples and the other samples at low and intermediate shear, but at high shear levels, a significant difference was only seen between the 15% PL sample and the other samples. The oil binding capacity showed a significant difference between the 45% PL sample and the other 2 samples. This study shows that dairy PL can be added to a vegetable oil to produce semi-solid material with appropriate functional properties.
Topics: Animals; Chemical Phenomena; Crystallization; Dairy Products; Fats; Gels; Phospholipids; Soybean Oil; Thermodynamics; Viscosity
PubMed: 33189284
DOI: 10.3168/jds.2020-18737 -
Proceedings of the National Academy of... Feb 2022A high extracellular adenosine triphosphate (ATP) concentration rapidly and reversibly exposes phosphatidylserine (PtdSer) in T cells by binding to the P2X7 receptor,...
A high extracellular adenosine triphosphate (ATP) concentration rapidly and reversibly exposes phosphatidylserine (PtdSer) in T cells by binding to the P2X7 receptor, which ultimately leads to necrosis. Using mouse T cell transformants expressing P2X7, we herein performed CRISPR/Cas9 screening for the molecules responsible for P2X7-mediated PtdSer exposure. In addition to Eros, which is required for the localization of P2X7 to the plasma membrane, this screening identified Xk and Vps13a as essential components for this process. Xk is present at the plasma membrane, and its paralogue, Xkr8, functions as a phospholipid scramblase. Vps13a is a lipid transporter in the cytoplasm. Blue-native polyacrylamide gel electrophoresis indicated that Xk and Vps13a interacted at the membrane. A null mutation in or blocked P2X7-mediated PtdSer exposure, the internalization of phosphatidylcholine, and cytolysis. Xk and Vps13a formed a complex in mouse splenic T cells, and Xk was crucial for ATP-induced PtdSer exposure and cytolysis in CD25CD4 T cells. and are responsible for McLeod syndrome and chorea-acanthocytosis, both characterized by a progressive movement disorder and cognitive and behavior changes. Our results suggest that the phospholipid scrambling activity mediated by XK and VPS13A is essential for maintaining homeostasis in the immune and nerve systems.
Topics: Adenosine Triphosphate; Amino Acid Transport Systems, Neutral; Animals; CRISPR-Cas Systems; Cell Death; Cell Line; Gene Deletion; Gene Expression Regulation; Genome-Wide Association Study; HEK293 Cells; Humans; Mice; Mice, Transgenic; Mutation; Phosphatidylserines; Phospholipids; Receptors, Purinergic P2X7; T-Lymphocytes; Vesicular Transport Proteins
PubMed: 35140185
DOI: 10.1073/pnas.2119286119 -
Biochimica Et Biophysica Acta.... Oct 2022Over the past decades an extensive effort has been made to provide a more comprehensive understanding of Wnt signaling, yet many regulatory and structural aspects remain...
Over the past decades an extensive effort has been made to provide a more comprehensive understanding of Wnt signaling, yet many regulatory and structural aspects remain elusive. Among these, the ability of Dishevelled (DVL) protein to relocalize at the plasma membrane is a crucial step in the activation of all Wnt pathways. The membrane binding of DVL was suggested to be mediated by the preferential interaction of its C-terminal DEP domain with phosphatidic acid (PA). However, due to the scarcity and fast turnover of PA, we investigated the role on the membrane association of other more abundant phospholipids. The combined results from computational simulations and experimental measurements with various model phospholipid membranes, demonstrate that the membrane binding of DEP/DVL constructs is governed by the concerted action of generic electrostatics and finely-tuned intermolecular interactions with individual lipid species. In particular, while we confirmed the strong preference for PA lipid, we also observed a weak but non-negligible affinity for phosphatidylserine, the most abundant anionic phospholipid in the plasma membrane, and phosphatidylinositol 4,5-bisphosphate. The obtained molecular insight into DEP-membrane interaction helps to elucidate the relation between changes in the local membrane composition and the spatiotemporal localization of DVL and, possibly, other DEP-containing proteins.
Topics: Cell Membrane; Dishevelled Proteins; Phosphatidic Acids; Proteins; Static Electricity
PubMed: 35750206
DOI: 10.1016/j.bbamem.2022.183983 -
Nucleic Acids Research Nov 2021Liposomes are widely used as synthetic analogues of cell membranes and for drug delivery. Lipid-binding DNA nanostructures can modify the shape, porosity and reactivity...
Liposomes are widely used as synthetic analogues of cell membranes and for drug delivery. Lipid-binding DNA nanostructures can modify the shape, porosity and reactivity of liposomes, mediated by cholesterol modifications. DNA nanostructures can also be designed to switch conformations by DNA strand displacement. However, the optimal conditions to facilitate stable, high-yield DNA-lipid binding while allowing controlled switching by strand displacement are not known. Here, we characterized the effect of cholesterol arrangement, DNA structure, buffer and lipid composition on DNA-lipid binding and strand displacement. We observed that binding was inhibited below pH 4, and above 200 mM NaCl or 40 mM MgCl2, was independent of lipid type, and increased with membrane cholesterol content. For simple motifs, binding yield was slightly higher for double-stranded DNA than single-stranded DNA. For larger DNA origami tiles, four to eight cholesterol modifications were optimal, while edge positions and longer spacers increased yield of lipid binding. Strand displacement achieved controlled removal of DNA tiles from membranes, but was inhibited by overhang domains, which are used to prevent cholesterol aggregation. These findings provide design guidelines for integrating strand displacement switching with lipid-binding DNA nanostructures. This paves the way for achieving dynamic control of membrane morphology, enabling broader applications in nanomedicine and biophysics.
Topics: Cholesterol; DNA; DNA, Single-Stranded; Hydrogen-Ion Concentration; Kinetics; Liposomes; Magnesium Chloride; Nanostructures; Nucleic Acid Conformation; Phosphatidylcholines; Phosphatidylethanolamines; Sodium Chloride; Solutions; Thermodynamics
PubMed: 34614184
DOI: 10.1093/nar/gkab888 -
Biochimica Et Biophysica Acta.... Sep 2020NMR is a sophisticated method for investigation of structure and dynamics of lipid and protein molecules in membranes. Vibrational spectroscopy is also powerful because... (Review)
Review
NMR is a sophisticated method for investigation of structure and dynamics of lipid and protein molecules in membranes. Vibrational spectroscopy is also powerful because of relatively high resolution and sensitivity, and easier access than NMR. A combined use of these spectroscopies could provide important insights into the membrane biophysics. A structural analysis of phosphatidylethanolamine (PE) bilayers in built-up films by infrared dichroism suggested that polar groups oriented parallel to the membrane surface. A Raman analysis of phosphatidylcholine (PC) revealed that the gauche conformation was preferred for the choline backbone not only in solid, but also in the gel and liquid-crystalline states. The polar group structure of DPPC bilayers in the liquid-crystalline state was determined by analyzing deuterium quadrupole splitting of the choline group and phosphorus chemical shift anisotropy of the phosphate group in combination with restriction of the gauche conformation of the choline group determined by Raman spectroscopy. This was an excellent complementarity of NMR and vibrational spectroscopies. The deuterium quadrupole splitting values mentioned above were found to change on addition of ions such as NaCl, CaCl, and LaCl, suggesting that a structural change takes place on ion binding and the polar group of PC works as an electric charge sensor of membranes. The ion-bound structure was determined by NMR using the restriction from Raman spectroscopy. The PN vector of phosphorylcholine group was inclined by 63° from the membrane surface, while the inclination was 18° in the ion-free form. The deuterium quadrupole splitting values and phosphorus powder patterns revealed that on mixing with phosphatidylglycerol (PG) or cardiolipin (CL), PC did not change its dynamic structure of the glycerol backbone, but PE did. The mixture of PE with PG or CL shared a new dynamic structure, suggesting their adaptive miscibility in the molecular level. PC was molecularly immiscible with any of PE, PG, and CL. The molecular miscibility would regulate not only interactions of proteins with mixed bilayers but also formation of asymmetric lipid membranes. Interactions of crown-ether (CE) modified artificial microbial peptides with phospholipid bilayers were investigated by NMR and FTIR. CE-modified 14-mers with one or two basic amino acid residues revealed position-specific selectivity for the suppression of calcein leakage from PC vesicles but did not for that from PG vesicles, suggesting that structures of the lipid polar groups play crucial roles in different responses of the vesicles to the positively charged peptides. Manipulation of the peptide-polar group interaction can be used for drug design.
Topics: Cardiolipins; Lipid Bilayers; Nuclear Magnetic Resonance, Biomolecular; Phosphatidylethanolamines; Phosphatidylglycerols; Spectrum Analysis, Raman
PubMed: 32407775
DOI: 10.1016/j.bbamem.2020.183352 -
Biomolecules Jan 2020Neuronal calcium sensors are a family of N-terminally myristoylated membrane-binding proteins possessing a different intracellular localization and thereby targeting...
Neuronal calcium sensors are a family of N-terminally myristoylated membrane-binding proteins possessing a different intracellular localization and thereby targeting unique signaling partner(s). Apart from the myristoyl group, the membrane attachment of these proteins may be modulated by their N-terminal positively charged residues responsible for specific recognition of the membrane components. Here, we examined the interaction of neuronal calcium sensor-1 (NCS-1) with natural membranes of different lipid composition as well as individual phospholipids in form of multilamellar liposomes or immobilized monolayers and characterized the role of myristoyl group and N-terminal lysine residues in membrane binding and phospholipid preference of the protein. NCS-1 binds to photoreceptor and hippocampal membranes in a Ca-independent manner and the binding is attenuated in the absence of myristoyl group. Meanwhile, the interaction with photoreceptor membranes is less dependent on myristoylation and more sensitive to replacement of K3, K7, and/or K9 of NCS-1 by glutamic acid, reflecting affinity of the protein to negatively charged phospholipids. Consistently, among the major phospholipids, NCS-1 preferentially interacts with phosphatidylserine and phosphatidylinositol with micromolar affinity and the interaction with the former is inhibited upon mutating of N-terminal lysines of the protein. Remarkably, NCS-1 demonstrates pronounced specific binding to phosphoinositides with high preference for phosphatidylinositol-3-phosphate. The binding does not depend on myristoylation and, unexpectedly, is not sensitive to the charge inversion mutations. Instead, phosphatidylinositol-3-phosphate can be recognized by a specific site located in the N-terminal region of the protein. These data provide important novel insights into the general mechanism of membrane binding of NCS-1 and its targeting to specific phospholipids ensuring involvement of the protein in phosphoinositide-regulated signaling pathways.
Topics: Binding Sites; Calcium; Hippocampus; Humans; Hydrogen Bonding; Ligands; Light; Liposomes; Lysine; Magnesium; Molecular Docking Simulation; Mutation; Myristic Acid; Neuronal Calcium-Sensor Proteins; Neurons; Neuropeptides; Phosphatidylinositol Phosphates; Protein Binding; Protein Domains; Signal Transduction; Spectrometry, Fluorescence; Static Electricity; Temperature
PubMed: 31973069
DOI: 10.3390/biom10020164