1
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Guo J, Ho JCS, Chin H, Mark AE, Zhou C, Kjelleberg S, Liedberg B, Parikh AN, Cho NJ, Hinks J, Mu Y, Seviour T. Response of microbial membranes to butanol: interdigitation vs. disorder. Phys Chem Chem Phys 2019; 21:11903-11915. [PMID: 31125035 DOI: 10.1039/c9cp01469a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Biobutanol production by fermentation is potentially a sustainable alternative to butanol production from fossil fuels. However, the toxicity of butanol to fermentative bacteria, resulting largely from cell membrane fluidization, limits production titers and is a major factor limiting the uptake of the technology. Here, studies were undertaken, in vitro and in silico, on the butanol effects on a representative bacterial (i.e. Escherichia coli) inner cell membrane. A critical butanol : lipid ratio for stability of 2 : 1 was observed, computationally, consistent with complete interdigitation. However, at this ratio the bilayer was ∼20% thicker than for full interdigitation. Furthermore, butanol intercalation induced acyl chain bending and increased disorder, measured as a 27% lateral diffusivity increase experimentally in a supported lipid bilayer. There was also a monophasic Tm reduction in butanol-treated large unilamellar vesicles. Both behaviours are inconsistent with an interdigitated gel. Butanol thus causes only partial interdigitation at physiological temperatures, due to butanol accumulating at the phospholipid headgroups. Acyl tail disordering (i.e. splaying and bending) fills the subsequent voids. Finally, butanol short-circuits the bilayer and creates a coupled system where interdigitated and splayed phospholipids coexist. These findings will inform the design of strategies targeting bilayer stability for increasing biobutanol production titers.
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Affiliation(s)
- Jingjing Guo
- Singapore Centre for Environmental Sciences Engineering (SCELSE), Nanyang Technological University, 60 Nanyang Drive, 637551, Singapore.
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2
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Poger D, Pöyry S, Mark AE. Could Cardiolipin Protect Membranes against the Action of Certain Antimicrobial Peptides? Aurein 1.2, a Case Study. ACS OMEGA 2018; 3:16453-16464. [PMID: 30613806 PMCID: PMC6312644 DOI: 10.1021/acsomega.8b02710] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/01/2018] [Accepted: 11/20/2018] [Indexed: 06/09/2023]
Abstract
The activity of a host of antimicrobial peptides has been examined against a range of lipid bilayers mimicking bacterial and eukaryotic membranes. Despite this, the molecular mechanisms and the nature of the physicochemical properties underlying the peptide-lipid interactions that lead to membrane disruption are yet to be fully elucidated. In this study, the interaction of the short antimicrobial peptide aurein 1.2 was examined in the presence of an anionic cardiolipin-containing lipid bilayer using molecular dynamics simulations. Aurein 1.2 is known to interact strongly with anionic lipid membranes. In the simulations, the binding of aurein 1.2 was associated with buckling of the lipid bilayer, the degree of which varied with the peptide concentration. The simulations suggest that the intrinsic properties of cardiolipin, especially the fact that it promotes negative membrane curvature, may help protect membranes against the action of peptides such as aurein 1.2 by counteracting the tendency of the peptide to induce positive curvature in target membranes.
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Affiliation(s)
- David Poger
- School
of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Queensland 4072, Australia
| | - Sanja Pöyry
- Department
of Physics, Tampere University of Technology, POB 692, F1-33720 Tampere, Finland
| | - Alan E. Mark
- School
of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Queensland 4072, Australia
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3
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Pruchnik H, Włoch A, Bonarska-Kujawa D, Kleszczyńska H. An In Vitro Study of the Effect of Cytotoxic Triorganotin Dimethylaminophenylazobenzoate Complexes on Red Blood Cells. J Membr Biol 2018; 251:735-745. [PMID: 30350012 PMCID: PMC6244762 DOI: 10.1007/s00232-018-0051-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Accepted: 10/13/2018] [Indexed: 10/31/2022]
Abstract
Interactions of tributyltin (TBTA) and triphenyltin (TPhTA) 2-[4 (dimethylamino)phenylazo]benzoates, showing promising cytostatic activity against tumor cells, with erythrocytes and with erythrocyte membranes and model lipid membranes have been investigated. The effect of TBTA and TPhTA on the erythrocyte and its model membrane was investigated by the microscopic and spectroscopic methods. Interaction of tin complexes with the membrane was determined on the basis of hemolytic activity, changes induced in the shape of erythrocytes, as well as physicochemical parameters of the membrane, such as fluidity. The studies showed that the compounds in higher concentration induce hemolysis; however, TBTA is more toxic than TPhTA. Both TBTA and TPhTA induce morphological alterations in red blood cells-from discocytes to spherocytes and from discocytes to echinocytes. The results suggest that investigated complexes interact with the erythrocyte membrane, change its properties, and probably locate themselves in the hydrophilic part of the membrane, which agrees with conclusions drawn from investigation of erythrocyte membranes and model lipid membranes with the help of fluorescence and infrared spectroscopy.
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Affiliation(s)
- Hanna Pruchnik
- Department of Physics and Biophysics, Wrocław University of Environmental and Life Sciences, ul. C.K. Norwida 25, 50-375 Wrocław, Poland
| | - Aleksandra Włoch
- Department of Physics and Biophysics, Wrocław University of Environmental and Life Sciences, ul. C.K. Norwida 25, 50-375 Wrocław, Poland
| | - Dorota Bonarska-Kujawa
- Department of Physics and Biophysics, Wrocław University of Environmental and Life Sciences, ul. C.K. Norwida 25, 50-375 Wrocław, Poland
| | - Halina Kleszczyńska
- Department of Physics and Biophysics, Wrocław University of Environmental and Life Sciences, ul. C.K. Norwida 25, 50-375 Wrocław, Poland
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4
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Rabinovich AL, Lyubartsev AP, Zhurkin DV. Unperturbed hydrocarbon chains and liquid phase bilayer lipid chains: a computer simulation study. EUROPEAN BIOPHYSICS JOURNAL: EBJ 2017; 47:109-130. [PMID: 28698919 PMCID: PMC5834621 DOI: 10.1007/s00249-017-1231-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Revised: 04/13/2017] [Accepted: 06/07/2017] [Indexed: 11/24/2022]
Abstract
In this work, the properties of saturated and unsaturated fatty acid acyl chains 16:0, 18:0, 18:1(n-9)cis, 18:2(n-6)cis, 18:3(n-3)cis, 18:4(n-3)cis, 18:5(n-3)cis, 20:4(n-6)cis, 20:5(n-3)cis and 22:6(n-3)cis in a bilayer liquid crystalline state and similar hydrocarbon chains (with CH[Formula: see text] terminal groups instead of C=O groups) in the unperturbed state characterised by a lack of long-range interaction were investigated. The unperturbed hydrocarbon chains were modelled by Monte Carlo simulations at temperature [Formula: see text] K; sixteen fully hydrated homogeneous liquid crystalline phosphatidylcholine bilayers containing these chains were studied by molecular dynamics simulations at the same temperature. To eliminate effects of the simulation parameters, the molecular dynamics and Monte Carlo simulations were carried out using the same structural data and force field coefficients. From these computer simulations, the average distances between terminal carbon atoms of the chains (end-to-end distances) were calculated and compared. The trends in the end-to-end distances obtained for the unperturbed chains were found to be qualitatively similar to those obtained for the same lipid chains in the bilayers. So, for understanding of a number of processes in biological membranes (e.g., changes in fatty acid composition caused by environmental changes such as temperature and pressure), it is possible to use, at least as a first approximation, the relationships between the structure and properties for unperturbed or isolated hydrocarbon chains.
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Affiliation(s)
- Alexander L Rabinovich
- Institute of Biology, Karelian Research Center, Russian Academy of Sciences, Pushkinskaya 11, Petrozavodsk, 185910, Russian Federation
| | - Alexander P Lyubartsev
- Department of Materials and Environmental Chemistry, Stockholm University, 106 91, Stockholm, Sweden.
| | - Dmitrii V Zhurkin
- Physics and Technology Department, Petrozavodsk State University, Universitetskaya 10, Petrozavodsk, 185910, Russian Federation
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5
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Inagaki S, Ghirlando R, Vishnivetskiy SA, Homan KT, White JF, Tesmer JJG, Gurevich VV, Grisshammer R. G Protein-Coupled Receptor Kinase 2 (GRK2) and 5 (GRK5) Exhibit Selective Phosphorylation of the Neurotensin Receptor in Vitro. Biochemistry 2015; 54:4320-9. [PMID: 26120872 PMCID: PMC4512254 DOI: 10.1021/acs.biochem.5b00285] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
![]()
G protein-coupled
receptor kinases (GRKs) play an important role
in the desensitization of G protein-mediated signaling of G protein-coupled
receptors (GPCRs). The level of interest in mapping their phosphorylation
sites has increased because recent studies suggest that the differential
pattern of receptor phosphorylation has distinct biological consequences. In vitro phosphorylation experiments using well-controlled
systems are useful for deciphering the complexity of these physiological
reactions and understanding the targeted event. Here, we report on
the phosphorylation of the class A GPCR neurotensin receptor 1 (NTSR1)
by GRKs under defined experimental conditions afforded by nanodisc
technology. Phosphorylation of NTSR1 by GRK2 was agonist-dependent,
whereas phosphorylation by GRK5 occurred in an activation-independent
manner. In addition, the negatively charged lipids in the immediate
vicinity of NTSR1 directly affect phosphorylation by GRKs. Identification
of phosphorylation sites in agonist-activated NTSR1 revealed that
GRK2 and GRK5 target different residues located on the intracellular
receptor elements. GRK2 phosphorylates only the C-terminal Ser residues,
whereas GRK5 phosphorylates Ser and Thr residues located in intracellular
loop 3 and the C-terminus. Interestingly, phosphorylation assays using
a series of NTSR1 mutants show that GRK2 does not require acidic residues
upstream of the phospho-acceptors for site-specific phosphorylation,
in contrast to the β2-adrenergic and μ-opioid
receptors. Differential phosphorylation of GPCRs by GRKs is thought
to encode a particular signaling outcome, and our in vitro study revealed NTSR1 differential phosphorylation by GRK2 and GRK5.
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Affiliation(s)
- Sayaka Inagaki
- †Membrane Protein Structure Function Unit, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Department of Health and Human Services, Rockville, Maryland 20852, United States
| | - Rodolfo Ghirlando
- ‡Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland 20892, United States
| | - Sergey A Vishnivetskiy
- §Department of Pharmacology, Vanderbilt University, Nashville, Tennessee 37232, United States
| | - Kristoff T Homan
- ∥Departments of Pharmacology and Biological Sciences, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Jim F White
- †Membrane Protein Structure Function Unit, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Department of Health and Human Services, Rockville, Maryland 20852, United States
| | - John J G Tesmer
- ∥Departments of Pharmacology and Biological Sciences, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Vsevolod V Gurevich
- §Department of Pharmacology, Vanderbilt University, Nashville, Tennessee 37232, United States
| | - Reinhard Grisshammer
- †Membrane Protein Structure Function Unit, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Department of Health and Human Services, Rockville, Maryland 20852, United States
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6
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Fernández-de-Alba C, Takahashi H, Richard A, Chenavier Y, Dubois L, Maurel V, Lee D, Hediger S, De Paëpe G. Matrix-free DNP-enhanced NMR spectroscopy of liposomes using a lipid-anchored biradical. Chemistry 2015; 21:4512-7. [PMID: 25663569 DOI: 10.1002/chem.201404588] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2014] [Indexed: 12/18/2022]
Abstract
Magic-angle spinning dynamic nuclear polarization (MAS-DNP) has been proven to be a powerful technique to enhance the sensitivity of solid-state NMR (SSNMR) in a wide range of systems. Here, we show that DNP can be used to polarize lipids using a lipid-anchored polarizing agent. More specifically, we introduce a C16-functionalized biradical, which allows localization of the polarizing agents in the lipid bilayer and DNP experiments to be performed in the absence of excess cryo-protectant molecules (glycerol, dimethyl sulfoxide, etc.). This constitutes another original example of the matrix-free DNP approach that we recently introduced.
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Affiliation(s)
- Carlos Fernández-de-Alba
- Université Grenoble Alpes, INAC, LCIB, 38000 Grenoble (France), Fax: (+33) 4-38-78-50-90; CEA, INAC, LCIB, 38054 Grenoble (France)
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7
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Inagaki S, Ghirlando R, Grisshammer R. Biophysical characterization of membrane proteins in nanodiscs. Methods 2013; 59:287-300. [PMID: 23219517 PMCID: PMC3608844 DOI: 10.1016/j.ymeth.2012.11.006] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2012] [Revised: 11/20/2012] [Accepted: 11/23/2012] [Indexed: 12/25/2022] Open
Abstract
Nanodiscs are self-assembled discoidal phospholipid bilayers surrounded and stabilized by membrane scaffold proteins (MSPs), that have become a powerful and promising tool for the study of membrane proteins. Even though their reconstitution is highly regulated by the type of MSP and phospholipid input, a biophysical characterization leading to the determination of the stoichiometry of MSP, lipid and membrane protein is essential. This is important for biological studies, as the oligomeric state of membrane proteins often correlates with their functional activity. Typically combinations of several methods are applied using, for example, modified samples that incorporate fluorescent labels, along with procedures that result in nanodisc disassembly and lipid dissolution. To obtain a comprehensive understanding of the native properties of nanodiscs, modification-free analysis methods are required. In this work we provide a strategy, using a combination of dynamic light scattering and analytical ultracentrifugation, for the biophysical characterization of unmodified nanodiscs. In this manner we characterize the nanodisc preparation in terms of its overall polydispersity and characterize the hydrodynamically resolved nanodisc of interest in terms of its sedimentation coefficient, Stokes' radius and overall protein and lipid stoichiometry. Functional and biological applications are also discussed for the study of the membrane protein embedded in nanodiscs under defined experimental conditions.
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Affiliation(s)
- Sayaka Inagaki
- Membrane Protein Structure Function Unit, National Institute of Neurological Disorders and Stroke, 5625 Fishers Lane, Room 4S12, Rockville, Maryland 20852, USA
| | - Rodolfo Ghirlando
- Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, Building 5, Room 208, 5 Memorial Drive, Bethesda, Maryland, 20814, USA
| | - Reinhard Grisshammer
- Membrane Protein Structure Function Unit, National Institute of Neurological Disorders and Stroke, 5625 Fishers Lane, Room 4S12, Rockville, Maryland 20852, USA
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8
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Inagaki S, Ghirlando R, White JF, Gvozdenovic-Jeremic J, Northup JK, Grisshammer R. Modulation of the interaction between neurotensin receptor NTS1 and Gq protein by lipid. J Mol Biol 2012; 417:95-111. [PMID: 22306739 DOI: 10.1016/j.jmb.2012.01.023] [Citation(s) in RCA: 87] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2011] [Revised: 01/09/2012] [Accepted: 01/13/2012] [Indexed: 12/11/2022]
Abstract
Membrane lipids have been implicated to influence the activity of G-protein-coupled receptors (GPCRs). Almost all of our knowledge on the role of lipids on GPCR and G protein function comes from work on the visual pigment rhodopsin and its G protein transducin, which reside in a highly specialized membrane environment. Thus, insight gained from rhodopsin signaling may not be simply translated to other nonvisual GPCRs. Here, we investigated the effect of lipid head group charges on the signal transduction properties of the class A GPCR neurotensin (NT) receptor 1 (NTS1) under defined experimental conditions, using self-assembled phospholipid nanodiscs prepared with the zwitter-ionic lipid 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), the negatively charged 1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-(1'-rac-glycerol) (POPG), or a POPC/POPG mixture. A combination of dynamic light scattering and sedimentation velocity showed that NTS1 was monomeric in POPC-, POPC/POPG-, and POPG-nanodiscs. Binding of the agonist NT to NTS1 occurred with similar affinities and was essentially unaffected by the phospholipid composition. In contrast, Gq protein coupling to NTS1 in various lipid nanodiscs was significantly different, and the apparent affinity of Gαq and Gβ(1)γ(1) to activated NTS1 increased with increasing POPG content. NTS1-catalyzed GDP/GTPγS nucleotide exchange at Gαq in the presence of Gβ(1)γ(1) and NT was crucially affected by the lipid type, with exchange rates higher by 1 or 2 orders of magnitude in POPC/POPG- and POPG-nanodiscs, respectively, compared to POPC-nanodiscs. Our data demonstrate that negatively charged lipids in the immediate vicinity of a nonvisual GPCR modulate the G-protein-coupling step.
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Affiliation(s)
- Sayaka Inagaki
- Membrane Protein Structure Function Unit, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Department of Health and Human Services, Rockville, MD 20852, USA
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9
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Kimura T, Cheng K, Rice KC, Gawrisch K. Location, structure, and dynamics of the synthetic cannabinoid ligand CP-55,940 in lipid bilayers. Biophys J 2009; 96:4916-24. [PMID: 19527650 DOI: 10.1016/j.bpj.2009.03.033] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2008] [Revised: 03/19/2009] [Accepted: 03/26/2009] [Indexed: 11/26/2022] Open
Abstract
The widely used hydrophobic cannabinoid ligand CP-55,940 partitions with high efficiency into biomembranes. We studied the location, orientation, and dynamics of CP-55,940 in POPC bilayers by solid-state NMR. Chemical-shift perturbation of POPC protons from the aromatic ring-current effect, as well as 1H NMR cross-relaxation rates, locate the hydroxyphenyl ring of the ligand near the lipid glycerol, carbonyls, and upper acyl-chain methylenes. Order parameters of the hydroxyphenyl ring determined by the 1H-13C DIPSHIFT experiment indicate that the bond between the hydroxyphenyl and hydroxycyclohexyl rings is oriented perpendicular to the bilayer normal. 2H NMR order parameters of the nonyl tail are very low, indicating that the hydrophobic chain maintains a high level of conformational flexibility in the membrane. Lateral diffusion rates of CP-55,940 and POPC were measured by 1H magic-angle spinning NMR with pulsed magnetic field gradients. The rate of CP-55,940 diffusion is comparable to the rate of lipid diffusion. The magnitude of cross-relaxation and diffusion rates suggests that associations between CP-55,940 and lipids are with lifetimes of a fraction of a microsecond. With its flexible hydrophobic tail, CP-55,940 may efficiently approach the binding site of the cannabinoid receptor from the lipid-water interface by lateral diffusion.
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Affiliation(s)
- Tomohiro Kimura
- Laboratory of Membrane Biochemistry and Biophysics, National Institute on Alcohol Abuse and Alcoholism, National Institutes of Health, Bethesda, Maryland, USA
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10
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Abstract
To better understand bilayer property dependency on lipid electrostatics and headgroup size, we use atomistic molecular dynamics simulations to study negatively charged and neutral lipid membranes. We compare the negatively charged phosphatidic acid (PA), which at physiological pH and salt concentration has a negative spontaneous curvature, with the negatively charged phosphatidylglycerol (PG) and neutrally charged phosphatidylcholine (PC), both of which have zero spontaneous curvature. The PA lipids are simulated using two different sets of partial charges for the headgroup and the varied charge distribution between the two PA systems results in significantly different locations for the Na(+) ions relative to the water/membrane interface. For one PA system, the Na(+) ions are localized around the phosphate group. In the second PA system, the Na(+) ions are located near the ester carbonyl atoms, which coincides with the preferred location site for the PG Na(+) ions. We find that the Na(+) ion location has a larger effect on bilayer fluidity properties than lipid headgroup size, where the A(lipid) and acyl chain order parameter values are more similar between the PA and PG bilayers that have Na(+) ions located near the ester groups than between the two PA bilayers.
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11
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Shaw JE, Alattia JR, Verity JE, Privé GG, Yip CM. Mechanisms of antimicrobial peptide action: Studies of indolicidin assembly at model membrane interfaces by in situ atomic force microscopy. J Struct Biol 2006; 154:42-58. [PMID: 16459101 DOI: 10.1016/j.jsb.2005.11.016] [Citation(s) in RCA: 71] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2005] [Revised: 10/13/2005] [Accepted: 11/09/2005] [Indexed: 11/21/2022]
Abstract
We report here on an in situ atomic force microscopy study of the interaction of indolicidin, a tryptophan-rich antimicrobial peptide, with phase-segregated zwitterionic DOPC/DSPC supported planar bilayers. By varying the peptide concentration and bilayer composition through the inclusion of anionic lipids (DOPG or DSPG), we found that indolicidin interacts with these model membranes in one of two concentration-dependent manners. At low peptide concentrations, indolicidin forms an amorphous layer on the fluid domains when these domains contain anionic lipids. At high peptide concentrations, indolicidin appears to initiate a lowering of the gel-phase domains independent of the presence of an anionic lipid. Similar studies performed using membrane-raft mimetic bilayers comprising 30mol% cholesterol/1:1 DOPC/egg sphingomyelin revealed that indolicidin does not form a carpet-like layer on the zwitterionic DOPC domains at low peptide concentrations and does not induce membrane lowering of the liquid-ordered sphingomyelin/cholesterol-rich domains at high peptide concentration. Simultaneous AFM-confocal microscopy imaging did however reveal that indolicidin preferentially inserts into the fluid-phase DOPC domains. These data suggest that the indolicidin-membrane association is influenced greatly by specific electrostatic interactions, lipid fluidity, and peptide concentration. These insights provide a glimpse into the mechanism of the membrane selectivity of antibacterial peptides and suggest a powerful correlated approach for characterizing peptide-membrane interactions.
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Affiliation(s)
- James E Shaw
- Department of Biochemistry, University of Toronto, Toronto, Ontario, Canada
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12
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Deol SS, Domene C, Bond PJ, Sansom MSP. Anionic phospholipid interactions with the potassium channel KcsA: simulation studies. Biophys J 2005; 90:822-30. [PMID: 16272446 PMCID: PMC1367107 DOI: 10.1529/biophysj.105.071407] [Citation(s) in RCA: 58] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Molecular dynamics (MD) simulations have been used to unmask details of specific interactions of anionic phospholipids with intersubunit binding sites on the surface of the bacterial potassium channel KcsA. Crystallographic data on a diacyl glycerol fragment at this site were used to model phosphatidylethanolamine (PE), or phosphatidylglycerol (PG), or phosphatidic acid (PA) at the intersubunit binding sites. Each of these models of a KcsA-lipid complex was embedded in phosphatidyl choline bilayer and explored in a 20 ns MD simulation. H-bond analysis revealed that in terms of lipid-protein interactions PA > PG >> PE and revealed how anionic lipids (PG and PA) bind to a site provided by two key arginine residues (R(64) and R(89)) at the interface between adjacent subunits. A 27 ns simulation was performed in which KcsA (without any lipids initially modeled at the R(64)/R(89) sites) was embedded in a PE/PG bilayer. There was a progressive specific increase over the course of the simulation in the number of H-bonds of PG with KcsA. Furthermore, two specific PG binding events at R(64)/R(89) sites were observed. The phosphate oxygen atoms of bound PG formed H-bonds to the guanidinium group of R(89), whereas the terminal glycerol H-bonded to R(64). Overall, this study suggests that simulations can help identify and characterize sites for specific lipid interactions on a membrane protein surface.
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Affiliation(s)
- Sundeep S Deol
- Department of Biochemistry, University of Oxford, Oxford OX1 3QU, United Kingdom
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13
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Murzyn K, Róg T, Pasenkiewicz-Gierula M. Phosphatidylethanolamine-phosphatidylglycerol bilayer as a model of the inner bacterial membrane. Biophys J 2004; 88:1091-103. [PMID: 15556990 PMCID: PMC1305115 DOI: 10.1529/biophysj.104.048835] [Citation(s) in RCA: 247] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Phosphatidylethanolamine (PE) and phosphatidylglycerol (PG) are the main lipid components of the inner bacterial membrane. A computer model for such a membrane was built of palmitoyloleoyl PE (POPE) and palmitoyloleoyl PG (POPG) in the proportion 3:1, and sodium ions (Na+) to neutralize the net negative charge on each POPG (POPE-POPG bilayer). The bilayer was simulated for 25 ns. A final 10-ns trajectory fragment was used for analyses. In the bilayer interfacial region, POPEs and POPGs interact readily with one another via intermolecular hydrogen (H) bonds and water bridges. POPE is the main H-bond donor in either PEPE or PEPG H-bonds; PGPG H-bonds are rarely formed. Almost all POPEs are H-bonded and/or water bridged to either POPE or POPG but PE-PG links are favored. In effect, the atom packing in the near-the-interface regions of the bilayer core is tight. Na+ does not bind readily to lipids, and interlipid links via Na+ are not numerous. Although POPG and POPE comprise one bilayer, their bilayer properties differ. The average surface area per POPG is larger and the average vertical location of the POPG phosphate group is lower than those of POPE. Also, the alkyl chains of POPG are more ordered and less densely packed than the POPE chains. The main conclusion of this study is that in the PE-PG bilayer PE interacts more strongly with PG than with PE. This is a likely molecular-level event behind a regulating mechanism developed by the bacteria to control its membrane permeability and stability consisting in changes of the relative PG/PE concentration in the membrane.
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Affiliation(s)
- Krzysztof Murzyn
- Department of Biophysics, Faculty of Biotechnology, Jagiellonian University, Kraków, Poland
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14
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Feller SE, Brown CA, Nizza DT, Gawrisch K. Nuclear Overhauser enhancement spectroscopy cross-relaxation rates and ethanol distribution across membranes. Biophys J 2002; 82:1396-404. [PMID: 11867455 PMCID: PMC1301941 DOI: 10.1016/s0006-3495(02)75494-5] [Citation(s) in RCA: 135] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
Abstract
Measurement of nuclear Overhauser enhancement spectroscopy cross-relaxation rates between ethanol and palmitoyloleoylphosphatidylcholine bilayers was combined with atomic-level molecular dynamics simulations. The molecular dynamics trajectories yielded autocorrelation functions of proton dipole-dipole interactions, and, consequently, relaxation times and cross-relaxation rates. These analyses allow the measured cross-relaxation rates to be interpreted in terms of relative interaction strengths with the various segments of the lipid molecule. We determined that cross-relaxation between ethanol and specific lipid resonances is primarily determined by the sites of interaction with some modulation due to lipid disorder and to local differences in intramolecular lipid dynamics. The rates scale linearly with the lifetime of temporary ethanol-lipid associations. Ethanol interacts with palmitoyloleoylphosphatidylcholine bilayers primarily via hydrophilic interactions, in particular the formation of hydrogen bonds to the lipid phosphate group. There is a weak contribution to binding from hydrophobic interaction with lipid chain segments near the glycerol. However, the strength of hydrophobic interactions is insufficient to compensate for the energetic loss of locating ethanol in an exclusively hydrophobic environment, resulting in a probability of locating ethanol in the bilayer center that is three orders of magnitude lower than locating ethanol at the lipid/water interface. The low cross-relaxation rates between terminal methyl protons of hydrocarbon chains and ethanol are as much the result of infrequent chain upturns as of brief excursions of ethanol into the region of lipid hydrocarbon chains near the glycerol. The combination of nuclear magnetic resonance measurements and molecular dynamics simulations offers a general pathway to study the interaction of small molecules with the lipid matrix at atomic resolution.
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Affiliation(s)
- Scott E Feller
- Department of Chemistry, Wabash College, Crawfordsville, Indiana 47933, USA
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15
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Ben-Menachem G, Byström T, Rechnitzer H, Rottem S, Rilfors L, Lindblom G. The physico-chemical characteristics of the phosphocholine-containing glycoglycerolipid MfGL-II govern the permeability properties of Mycoplasma fermentans. EUROPEAN JOURNAL OF BIOCHEMISTRY 2001; 268:3694-701. [PMID: 11432735 DOI: 10.1046/j.1432-1327.2001.02277.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Mycoplasma fermentans seems to be involved in several pathogenic conditions in humans, and is among other things capable of fusing with T-cells and lymphocytes. The choline-containing phosphoglycolipid 6'-O-(3"-phosphocholine-2"-amino-1"-phospho-1",3"-propanediol)-alpha-D-glucopyranosyl-(1'-->3)-1,2-diacylglycerol (MfGL-II) in the membrane of M. fermentans has been suggested to enhance the fusion process, and the characteristics of MfGL-II were therefore investigated. When a cell culture ages the fraction of MfGL-II increases, and the fraction of the other major membrane lipid, phosphatidylglycerol (PtdGro), decreases concomitantly. Swelling experiments showed that the permeability and osmotic fragility are markedly reduced in aged cells. MfGL-II is selectively released into the surrounding medium when aged M. fermentans cells are incubated in buffer containing EDTA. The physico-chemical properties of MfGL-II were studied by NMR spectroscopy and differential scanning calorimetry, and they can explain the biochemical results. The temperature for the transition between gel and lamellar liquid crystalline (Lalpha) phases is 35-45 degrees C higher for MfGL-II than for PtdGro, which most probably gives rise to the reduced permeability in aged cells. At high water contents MfGL-II forms an Lalpha phase and isotropic aggregates which were interpreted to be vesicles with a radius of approximately 450 A. It is proposed that MfGL-II forms vesicles in the surrounding medium when it is released from the cell membrane. Neither EDTA nor Ca2+ ions have a significant influence on the aggregate structures formed by MfGL-II. Our results indicate that MfGL-II has no fusogenic properties. It is more probable that a recently identified lysolipid in the M. fermentans membrane acts as a fusogen.
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Affiliation(s)
- G Ben-Menachem
- The Hebrew University-Hadassah Medical School, Jerusalem, Israel
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16
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Schreier S, Malheiros SV, de Paula E. Surface active drugs: self-association and interaction with membranes and surfactants. Physicochemical and biological aspects. BIOCHIMICA ET BIOPHYSICA ACTA 2000; 1508:210-34. [PMID: 11090827 DOI: 10.1016/s0304-4157(00)00012-5] [Citation(s) in RCA: 527] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Many pharmacologically active compounds are of amphiphilic (or hydrophobic) nature. As a result, they tend to self-associate and to interact with biological membranes. This review focuses on the self-aggregation properties of drugs, as well as on their interaction with membranes. It is seen that drug-membrane interactions are analogous to the interactions between membranes and classical detergents. Phenomena such as shape changes, vesiculation, membrane disruption, and solubilization have been observed. At the molecular level, these events seem to be modulated by lipid flip-flop and formation of non-bilayer phases. The modulation of physicochemical properties of drugs by self-association and membrane binding is discussed. Pathological consequences of drug-membrane interaction are described. The mechanisms of drug solubilization by surfactants are reviewed from the physicochemical point of view and in relation to drug carrying and absorption by the organism.
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Affiliation(s)
- S Schreier
- Departmento de Bioquimica, Instituto de Quimica, Universidade de Saõ Paulo, Brazil.
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17
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Hao YH, Zhang GJ, Chen JW. The structure and function of gramicidin A embedded in interdigitated bilayer. Chem Phys Lipids 2000; 104:207-15. [PMID: 10669312 DOI: 10.1016/s0009-3084(99)00126-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
The effects of phase transition from normal to interdigitated lipid bilayer on the function and structure of membrane proteins were studied using linear gramicidin (gramicidin A) as a model. Interdigitated bilayer structure of dipalmitoylphosphatidylglycerol (DPPG) liposomes that was induced by atropine could not be changed notably by intercalating of gramicidin. The K+ transportation of gramicidin in both normal and interdigitated bilayer was assayed by measuring the membrane potential. Results showed that gramicidin in interdigitated bilayer exhibited lower transport capability. Intrinsic fluorescence spectrum of gramicidin in interdigitated bilayer blue-shifted 2.8 nm from the spectrum in normal bilayer, which means that interdigitation provides a more hydrophobic environment for gramicidin. Circular dichroism measurement results indicated that the conformation of gramicidin in interdigitated bilayer is not the typical beta6.3 helix as in the normal bilayer. The results suggested that the interdigitated lipid bilayer might largely affect the structure and function of membrane proteins.
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Affiliation(s)
- Y H Hao
- National Laboratory of Biomacromolecules, Institute of Biophysics, Academia Sinica, Beijing, People's Republic of China
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18
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R�?ycka-Roszak B, Pruchnik H, Kami?ski E. The effect of some phenyltin compounds on the thermotropic phase behaviour and the structure of model membranes. Appl Organomet Chem 2000. [DOI: 10.1002/1099-0739(200009)14:9<465::aid-aoc17>3.0.co;2-s] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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19
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Rosser MF, Lu HM, Dea P. Effects of alcohols on lipid bilayers with and without cholesterol: the dipalmitoylphosphatidylcholine system. Biophys Chem 1999; 81:33-44. [PMID: 17030329 DOI: 10.1016/s0301-4622(99)00081-2] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/1999] [Revised: 06/14/1999] [Accepted: 06/14/1999] [Indexed: 12/01/2022]
Abstract
Differential scanning calorimetry is a useful method to study the thermotropic phase transitions of a phospholipid bilayer. In the present study DSC is used to determine the effects of methanol and ethanol on DPPC and DPPC/2 mol% cholesterol bilayers. The biphasic effect of the main transition and the presence of an extra peak on the DSC cooling scans were observed above certain alcohol concentrations. In the presence of 2% cholesterol, the concentration at which the biphasic effect occurs is increased by both short-chain alcohols. 1,6-Diphenyl-1,3,5-hexatriene (DPH) is used as a fluorescent probe to directly determine the onset of interdigitation in these systems as reflected by a drop in the DPH fluorescence intensity.
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Affiliation(s)
- M F Rosser
- Department of Chemistry, Occidental College, Los Angeles, CA 90041, USA
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20
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Koynova R, Caffrey M. Phases and phase transitions of the phosphatidylcholines. BIOCHIMICA ET BIOPHYSICA ACTA 1998; 1376:91-145. [PMID: 9666088 DOI: 10.1016/s0304-4157(98)00006-9] [Citation(s) in RCA: 803] [Impact Index Per Article: 30.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
LIPIDAT (http://www.lipidat.chemistry.ohio-state.edu) is an Internet accessible, computerized relational database providing access to the wealth of information scattered throughout the literature concerning synthetic and biologically derived polar lipid polymorphic and mesomorphic phase behavior and molecular structures. Here, a review of the data subset referring to phosphatidylcholines is presented together with an analysis of these data. This subset represents ca. 60% of all LIPIDAT records. It includes data collected over a 43-year period and consists of 12,208 records obtained from 1573 articles in 106 different journals. An analysis of the data in the subset identifies trends in phosphatidylcholine phase behavior reflecting changes in lipid chain length, unsaturation (number, isomeric type and position of double bonds), asymmetry and branching, type of chain-glycerol linkage (ester, ether, amide), position of chain attachment to the glycerol backbone (1,2- vs. 1,3-) and head group modification. Also included is a summary of the data concerning the effect of pressure, pH, stereochemical purity, and different additives such as salts, saccharides, amino acids and alcohols, on phosphatidylcholine phase behavior. Information on the phase behavior of biologically derived phosphatidylcholines is also presented. This review includes 651 references.
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Affiliation(s)
- R Koynova
- Institute of Biophysics, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria
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21
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Effects of ethanol on permeability of phosphatidylcholine/cholesterol mixed liposomal membranes. Chem Phys Lipids 1997. [DOI: 10.1016/s0009-3084(96)02634-5] [Citation(s) in RCA: 44] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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22
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Almog R, Mannella CA. Molecular packing of cord factor and its interaction with phosphatidylinositol in mixed monolayers. Biophys J 1996; 71:3311-9. [PMID: 8968600 PMCID: PMC1233818 DOI: 10.1016/s0006-3495(96)79523-1] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
Abstract
Cord factor (trehalose 6,6'-dimycolate, CF) is a glycolipid located in the outer mycobacterial cell wall that is implicated in the pathogenesis of mycobacteria. Furthermore, CF is a convenient model for studying mycolic acid residues, the major lipid constituents of the mycobacterial cell wall that are believed to form a barrier against drug penetration. The surface properties of CF and its interactions with phosphatidylinositol (PI) have been investigated using the monolayer technique. During compression/expansion/recompression cycles, CF monolayers switch from a loosely packed to a more tightly packed structure. The change in surface properties suggests a molecular rearrangement, perhaps involving interdigitation of long and short chains of the CF molecules. In CF-PI monolayers, maximal lateral packing density occurs between 0.5 and 0.7 mole fraction CF, which is close to the relative composition of mycolic acid residues and shorter-chain lipids in the mycobacterial cell wall. Low concentrations of CF increase the order in PI monolayers, consistent with CF toxicity involving rigidification of cell membranes.
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Affiliation(s)
- R Almog
- Division of Molecular Medicine, Wadsworth Center, New York State Department of Health, Albany, USA
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23
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Komatsu H, Okada S. Ethanol-enhanced permeation of phosphatidylcholine/ phosphatidylethanolamine mixed liposomal membranes due to ethanol-induced lateral phase separation. BIOCHIMICA ET BIOPHYSICA ACTA 1996; 1283:73-9. [PMID: 8765097 DOI: 10.1016/0005-2736(96)00082-x] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Effects of ethanol on permeability of large unilamellar vesicles (ca. 160 nm in diameter), composed of dipalmitoyl phosphatidylcholine/dilauroyl phosphatidylethanolamine (DLPE) mixture, were studied by monitoring leakage of the fluorescent dye, calcein, entrapped in the inner aqueous phase of the vesicles. In the presence of 2.1 M ethanol, permeabilities of membranes in various phases were G (bilayer gel) phase > L (bilayer liquid-crystalline) phase with a high mole fraction of DLPE and (I (ethanol-induced interdigitated gel phase) + G) phase > (I + L) at 20 mol % DLPE. Arrhenius plots of the leakage rate constants demonstrated that the permeability was greater with 2.1 M ethanol than without ethanol, especially in the temperature above 33 degrees C, suggesting that the presence of ethanol can induce lateral phase separation of liposomal membranes and cause them to have a high permeability even if they are stable and have low permeability in its absence.
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Affiliation(s)
- H Komatsu
- Division of Drugs, National Institute of Health Sciences, Osaka, Japan.
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24
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Löbbecke L, Cevc G. Effects of short-chain alcohols on the phase behavior and interdigitation of phosphatidylcholine bilayer membranes. BIOCHIMICA ET BIOPHYSICA ACTA 1995; 1237:59-69. [PMID: 7619843 DOI: 10.1016/0005-2736(95)00076-f] [Citation(s) in RCA: 95] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Solute effects on the polymorphism and phase transitions in the suspensions of dipalmitoylphosphatidylcholine (DPPC) were studied by means of carboxyfluorescein (CF) and phosphatidylethanolamine rhodamine (PERho) fluorescence, differential scanning calorimetry, and X-ray diffraction. Specifically, the shifts of the lipid chain-melting phase transition, pretransition and subtransition temperature as a function of the bulk alcohol concentration were determined calorimetrically. The chain-melting phase transition temperature, Tm, was found to depend on the chain-length of the added alcohol: for short-chain alcohols (up to n-propanol), Tm first decreases and then increases with increasing alcohol concentration. For longer-chain alcohols, however, Tm decreases over the whole investigated alcohol concentration range. The pretransition and the subtransition temperature of DPPC both decrease monotonously (but non-linearly) with increasing alcohol concentration, but the former transition disappears at some characteristic, chain-length dependent alcohol concentration, cL beta i. This point in the solute-dependent phase diagram of DPPC is diagnostic of the complete hydrocarbon interdigitation. It was determined for a series of short-chain alcohols ranging from methanol through to 1-hexanol. A quantitative formula for the calculation of such limiting alcohol concentration is introduced. This formula relates the cL beta i values to the free energy of transfer of alcohols from the aqueous sub-phase into the DPPC sub-phase. By using the concept of an apparent chain-length this formalism can also be used for the alcohols with polar OH-groups at the second or third position on the hydrocarbon chain. Alcohol-induced hydrocarbon interdigitation in the phospholipid bilayers is thus shown to result chiefly from the solute-induced perturbation (lateral expansion) in the lipid headgroup region. Longer-chain alcohols, which balance this effect by disordering the phospholipid chains, therefore do not induce chain interdigitation.
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Affiliation(s)
- L Löbbecke
- Technische Universität München, Klinikum r.d. Isar, Germany
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