메뉴 건너뛰기




Volumn 9, Issue 1, 2013, Pages 670-678

Cardiolipin models for molecular simulations of bacterial and mitochondrial membranes

Author keywords

[No Author keywords available]

Indexed keywords


EID: 84872155084     PISSN: 15499618     EISSN: 15499626     Source Type: Journal    
DOI: 10.1021/ct300590v     Document Type: Article
Times cited : (26)

References (55)
  • 2
    • 2542488501 scopus 로고    scopus 로고
    • Lipid rafts-protein association and the regulation of protein activity
    • Lucero, H. A.; Robbins, P. W. Lipid rafts-protein association and the regulation of protein activity Arch. Biochem. Biophys. 2004, 426, 208-224
    • (2004) Arch. Biochem. Biophys. , vol.426 , pp. 208-224
    • Lucero, H.A.1    Robbins, P.W.2
  • 3
    • 0038298778 scopus 로고    scopus 로고
    • Is a fluid-mosaic model of biological membranes fully relevant? Studies on lipid organization in model and biological membranes
    • Wisniewska, A.; Draus, J.; Subczynski, W. K. Is a fluid-mosaic model of biological membranes fully relevant? Studies on lipid organization in model and biological membranes Cell. Mol. Biol. Lett. 2003, 8, 147-160
    • (2003) Cell. Mol. Biol. Lett. , vol.8 , pp. 147-160
    • Wisniewska, A.1    Draus, J.2    Subczynski, W.K.3
  • 5
    • 0026603840 scopus 로고
    • Cardiolipins and Biomembrane Function
    • Hoch, F. L. Cardiolipins and Biomembrane Function Biochim. Biophys. Acta 1992, 1113, 71-133
    • (1992) Biochim. Biophys. Acta , vol.1113 , pp. 71-133
    • Hoch, F.L.1
  • 6
    • 0032407654 scopus 로고    scopus 로고
    • Minireview: Cardiolipins and mitochondrial proton-selective leakage
    • Hoch, F. L. Minireview: Cardiolipins and mitochondrial proton-selective leakage J. Bioenerg. Biomembr. 1998, 30, 511-532
    • (1998) J. Bioenerg. Biomembr. , vol.30 , pp. 511-532
    • Hoch, F.L.1
  • 7
    • 0027425316 scopus 로고
    • Ph-Dissociation Characteristics of Cardiolipin and Its 2'-Deoxy Analog
    • Kates, M.; Syz, J. Y.; Gosser, D.; Haines, T. H. Ph-Dissociation Characteristics of Cardiolipin and Its 2'-Deoxy Analog Lipids 1993, 28, 877-882
    • (1993) Lipids , vol.28 , pp. 877-882
    • Kates, M.1    Syz, J.Y.2    Gosser, D.3    Haines, T.H.4
  • 8
    • 14544292020 scopus 로고    scopus 로고
    • Electrostatic interactions between model mitochondrial membranes
    • Nichols-Smith, S.; Kuhl, T. Electrostatic interactions between model mitochondrial membranes Colloids Surf., B 2005, 41, 121-7
    • (2005) Colloids Surf., B , vol.41 , pp. 121-127
    • Nichols-Smith, S.1    Kuhl, T.2
  • 9
    • 0018393487 scopus 로고
    • Phospholipid-Synthesis during the Cell-Division Cycle of Escherichia-Coli
    • Pierucci, O. Phospholipid-Synthesis during the Cell-Division Cycle of Escherichia-Coli J. Bacteriol. 1979, 138, 453-460
    • (1979) J. Bacteriol. , vol.138 , pp. 453-460
    • Pierucci, O.1
  • 10
    • 50249148905 scopus 로고    scopus 로고
    • Cardiolipin, the heart of mitochondrial metabolism
    • Houtkooper, R. H.; Vaz, F. M. Cardiolipin, the heart of mitochondrial metabolism Cell. Mol. Life Sci. 2008, 65, 2493-2506
    • (2008) Cell. Mol. Life Sci. , vol.65 , pp. 2493-2506
    • Houtkooper, R.H.1    Vaz, F.M.2
  • 12
    • 0001008704 scopus 로고
    • Molecular-Dynamics Simulation of a Bilayer of 200 Lipids in the Gel and in the Liquid-Crystal Phases
    • Heller, H.; Schaefer, M.; Schulten, K. Molecular-Dynamics Simulation of a Bilayer of 200 Lipids in the Gel and in the Liquid-Crystal Phases J. Phys. Chem. 1993, 97, 8343-8360
    • (1993) J. Phys. Chem. , vol.97 , pp. 8343-8360
    • Heller, H.1    Schaefer, M.2    Schulten, K.3
  • 13
    • 0035963778 scopus 로고    scopus 로고
    • Molecular dynamics study of the effect of surfactant on a biomembrane
    • Bandyopadhyay, S.; Shelley, J. C.; Klein, M. L. Molecular dynamics study of the effect of surfactant on a biomembrane J. Phys. Chem. B 2001, 105, 5979-5986
    • (2001) J. Phys. Chem. B , vol.105 , pp. 5979-5986
    • Bandyopadhyay, S.1    Shelley, J.C.2    Klein, M.L.3
  • 14
    • 53049083198 scopus 로고    scopus 로고
    • Molecular dynamics simulations of cardiolipin bilayers
    • Dahlberg, M.; Maliniak, A. Molecular dynamics simulations of cardiolipin bilayers J. Phys. Chem. B 2008, 112, 11655-11663
    • (2008) J. Phys. Chem. B , vol.112 , pp. 11655-11663
    • Dahlberg, M.1    Maliniak, A.2
  • 15
    • 34547279303 scopus 로고    scopus 로고
    • Polymorphic phase behavior of cardiolipin derivatives studied by coarse-grained molecular dynamics
    • Dahlberg, M. Polymorphic phase behavior of cardiolipin derivatives studied by coarse-grained molecular dynamics J. Phys. Chem. B 2007, 111, 7194-7200
    • (2007) J. Phys. Chem. B , vol.111 , pp. 7194-7200
    • Dahlberg, M.1
  • 16
    • 84860778070 scopus 로고    scopus 로고
    • Insight into the properties of cardiolipin containing bilayers from molecular dynamics simulations, using a hybrid all-atom/united-atom force field
    • Aguayo, D.; Gonzalez-Nilo, F. D.; Chipot, C. J. Insight into the properties of cardiolipin containing bilayers from molecular dynamics simulations, using a hybrid all-atom/united-atom force field. J. Chem. Theory Comput. 2012
    • (2012) J. Chem. Theory Comput.
    • Aguayo, D.1    Gonzalez-Nilo, F.D.2    Chipot, C.J.3
  • 17
    • 21244475101 scopus 로고    scopus 로고
    • Phosphatidylethanolamine-phosphatidylglycerol bilayer as a model of the inner bacterial membrane
    • Murzyn, K.; Rog, T.; Pasenkiewicz-Gierula, M. Phosphatidylethanolamine- phosphatidylglycerol bilayer as a model of the inner bacterial membrane Biophys. J. 2005, 88, 1091-1103
    • (2005) Biophys. J. , vol.88 , pp. 1091-1103
    • Murzyn, K.1    Rog, T.2    Pasenkiewicz-Gierula, M.3
  • 18
    • 65249133096 scopus 로고    scopus 로고
    • Role of Cardiolipins in the Inner Mitochondrial Membrane: Insight Gained through Atom-Scale Simulations
    • Rog, T.; Martinez-Seara, H.; Munck, N.; Oresic, M.; Karttunen, M.; Vattulainen, I. Role of Cardiolipins in the Inner Mitochondrial Membrane: Insight Gained through Atom-Scale Simulations J. Phys. Chem. B 2009, 113, 3413-3422
    • (2009) J. Phys. Chem. B , vol.113 , pp. 3413-3422
    • Rog, T.1    Martinez-Seara, H.2    Munck, N.3    Oresic, M.4    Karttunen, M.5    Vattulainen, I.6
  • 19
    • 0033257219 scopus 로고    scopus 로고
    • Construction and optimization of a computer model for a bacterial membrane
    • Murzyn, K.; Pasenkiewicz-Gierula, M. Construction and optimization of a computer model for a bacterial membrane Acta Biochim. Pol. 1999, 46, 631-639
    • (1999) Acta Biochim. Pol. , vol.46 , pp. 631-639
    • Murzyn, K.1    Pasenkiewicz-Gierula, M.2
  • 20
  • 21
    • 84872145033 scopus 로고    scopus 로고
    • version 8.5; Schroedinger, LLC: New York
    • Maestro, version 8.5; Schroedinger, LLC: New York, 2010.
    • (2010) Maestro
  • 22
    • 0029912748 scopus 로고    scopus 로고
    • Development and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids
    • Jorgensen, W. L.; Maxwell, D. S.; Tirado Rives, J. Development and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids J. Am. Chem. Soc. 1996, 118, 11225-11236
    • (1996) J. Am. Chem. Soc. , vol.118 , pp. 11225-11236
    • Jorgensen, W.L.1    Maxwell, D.S.2    Tirado Rives, J.3
  • 24
    • 0034423977 scopus 로고    scopus 로고
    • Perspective on "density functional thermochemistry. III. The role of exact exchange" - Becke AD (1993) J Chem Phys 98:5648-52
    • Raghavachari, K. Perspective on "Density functional thermochemistry. III. The role of exact exchange"-Becke AD (1993) J Chem Phys 98:5648-52 Theor. Chem. Acc. 2000, 103, 361-363
    • (2000) Theor. Chem. Acc. , vol.103 , pp. 361-363
    • Raghavachari, K.1
  • 27
    • 33748518255 scopus 로고    scopus 로고
    • Comparison of multiple amber force fields and development of improved protein backbone parameters
    • Hornak, V.; Abel, R.; Okur, A.; Strockbine, B.; Roitberg, A.; Simmerling, C. Comparison of multiple amber force fields and development of improved protein backbone parameters Proteins 2006, 65, 712-725
    • (2006) Proteins , vol.65 , pp. 712-725
    • Hornak, V.1    Abel, R.2    Okur, A.3    Strockbine, B.4    Roitberg, A.5    Simmerling, C.6
  • 28
    • 46049113872 scopus 로고    scopus 로고
    • Extension of the GLYCAM06 biomolecular force field to lipids, lipid bilayers and glycolipids
    • Tessier, M. B.; DeMarco, M. L.; Yongye, A. B.; Woods, R. J. Extension of the GLYCAM06 biomolecular force field to lipids, lipid bilayers and glycolipids Mol. Simul. 2008, 34, 349-363
    • (2008) Mol. Simul. , vol.34 , pp. 349-363
    • Tessier, M.B.1    Demarco, M.L.2    Yongye, A.B.3    Woods, R.J.4
  • 29
    • 0015608814 scopus 로고
    • Characterization of the cardiolipin synthetase activity of Escherichia coli envelopes
    • Tunaitis, E.; Cronan, J. E., Jr. Characterization of the cardiolipin synthetase activity of Escherichia coli envelopes Arch. Biochem. Biophys. 1973, 155, 420-7
    • (1973) Arch. Biochem. Biophys. , vol.155 , pp. 420-427
    • Tunaitis, E.1    Cronan Jr., J.E.2
  • 30
    • 34547123821 scopus 로고    scopus 로고
    • Allosteric regulation of SecA: Magnesium-mediated control of conformation and activity
    • Gold, V. A.; Robson, A.; Clarke, A. R.; Collinson, I. Allosteric regulation of SecA: magnesium-mediated control of conformation and activity J. Biol. Chem. 2007, 282, 17424-32
    • (2007) J. Biol. Chem. , vol.282 , pp. 17424-17432
    • Gold, V.A.1    Robson, A.2    Clarke, A.R.3    Collinson, I.4
  • 34
    • 33846587916 scopus 로고    scopus 로고
    • CHARMM force field parameters for simulation of reactive intermediates in native and thio-substituted ribozymes
    • Mayaan, E.; Moser, A.; MacKerell, A. D., Jr.; York, D. M. CHARMM force field parameters for simulation of reactive intermediates in native and thio-substituted ribozymes J. Comput. Chem. 2007, 28, 495-507
    • (2007) J. Comput. Chem. , vol.28 , pp. 495-507
    • Mayaan, E.1    Moser, A.2    Mackerell Jr., A.D.3    York, D.M.4
  • 35
    • 7244251461 scopus 로고    scopus 로고
    • Control of ion selectivity in potassium channels by electrostatic and dynamic properties of carbonyl ligands
    • Noskov, S. Y.; Berneche, S.; Roux, B. Control of ion selectivity in potassium channels by electrostatic and dynamic properties of carbonyl ligands Nature 2004, 431, 830-4
    • (2004) Nature , vol.431 , pp. 830-834
    • Noskov, S.Y.1    Berneche, S.2    Roux, B.3
  • 36
    • 48749137581 scopus 로고
    • Stochastic boundary conditions for molecular dynamics simulations of ST2 water
    • Brunger, A.; Brooks, C. L. Stochastic boundary conditions for molecular dynamics simulations of ST2 water Chem. Phys. Lett. 1984, 105, 495-500
    • (1984) Chem. Phys. Lett. , vol.105 , pp. 495-500
    • Brunger, A.1    Brooks, C.L.2
  • 37
    • 36449007836 scopus 로고
    • Constant pressure molecular dynamics simulation: The Langevin piston method
    • Feller, S. E.; Zhang, Y.; Pastor, R. W.; Brooks, B. R. Constant pressure molecular dynamics simulation: the Langevin piston method J. Chem. Phys. 1995, 103, 4613
    • (1995) J. Chem. Phys. , vol.103 , pp. 4613
    • Feller, S.E.1    Zhang, Y.2    Pastor, R.W.3    Brooks, B.R.4
  • 39
    • 0006073669 scopus 로고
    • Ab initio effective core potentials for molecular calculations. Potentials for main group elements Na to Bi
    • Wadt, W. R.; Hay, P. J. Ab initio effective core potentials for molecular calculations. Potentials for main group elements Na to Bi J. Chem. Phys. 1985, 82, 284
    • (1985) J. Chem. Phys. , vol.82 , pp. 284
    • Wadt, W.R.1    Hay, P.J.2
  • 40
    • 70349551416 scopus 로고    scopus 로고
    • The physicochemical properties of cardiolipin bilayers and cardiolipin-containing lipid membranes
    • Lewis, R. N. A. H.; McElhaney, R. N. The physicochemical properties of cardiolipin bilayers and cardiolipin-containing lipid membranes Biochim. Biophys. Acta, Biomembr. 2009, 1788, 2069-2079
    • (2009) Biochim. Biophys. Acta, Biomembr. , vol.1788 , pp. 2069-2079
    • Lewis, R.N.A.H.1    McElhaney, R.N.2
  • 41
    • 35748967575 scopus 로고    scopus 로고
    • Acyl chain order parameter profiles in phospholipid bilayers: Computation from molecular dynamics simulations and comparison with 2H NMR experiments
    • Vermeer, L. S.; de Groot, B. L.; Reat, V.; Milon, A.; Czaplicki, J. Acyl chain order parameter profiles in phospholipid bilayers: computation from molecular dynamics simulations and comparison with 2H NMR experiments Eur. Biophys. J. 2007, 36, 919-31
    • (2007) Eur. Biophys. J. , vol.36 , pp. 919-931
    • Vermeer, L.S.1    De Groot, B.L.2    Reat, V.3    Milon, A.4    Czaplicki, J.5
  • 42
    • 34247579683 scopus 로고    scopus 로고
    • Calorimetric, X-ray diffraction, and spectroscopic studies of the thermotropic phase behavior and organization of tetramyristoyl cardiolipin membranes
    • Lewis, R. N. A. H.; Zweytick, D.; Pabst, G.; Lohner, K.; McElhaney, R. N. Calorimetric, X-ray diffraction, and spectroscopic studies of the thermotropic phase behavior and organization of tetramyristoyl cardiolipin membranes Biophys. J. 2007, 92, 3166-3177
    • (2007) Biophys. J. , vol.92 , pp. 3166-3177
    • Lewis, R.N.A.H.1    Zweytick, D.2    Pabst, G.3    Lohner, K.4    McElhaney, R.N.5
  • 43
    • 0000254361 scopus 로고    scopus 로고
    • A Voronoi analysis of lipid area fluctuation in a bilayer
    • Shinoda, W.; Okazaki, S. A Voronoi analysis of lipid area fluctuation in a bilayer J. Chem. Phys. 1998, 109, 1517-1521
    • (1998) J. Chem. Phys. , vol.109 , pp. 1517-1521
    • Shinoda, W.1    Okazaki, S.2
  • 45
    • 84865722478 scopus 로고    scopus 로고
    • GAFFlipid: A General Amber Force Field for the accurate molecular dynamics simulation of phospholipid
    • Dickson, C. J.; Rosso, L.; Betz, R. M.; Walker, R. C.; Gould, I. R. GAFFlipid: a General Amber Force Field for the accurate molecular dynamics simulation of phospholipid Soft Matter 2012, 8, 9617-9627
    • (2012) Soft Matter , vol.8 , pp. 9617-9627
    • Dickson, C.J.1    Rosso, L.2    Betz, R.M.3    Walker, R.C.4    Gould, I.R.5
  • 46
    • 80052265277 scopus 로고    scopus 로고
    • Lipid packing variations induced by pH in cardiolipin-containing bilayers: The driving force for the cristae-like shape instability
    • Khalifat, N.; Fournier, J. B.; Angelova, M. I.; Puff, N. Lipid packing variations induced by pH in cardiolipin-containing bilayers: the driving force for the cristae-like shape instability Biochim. Biophys. Acta 2011, 1808, 2724-33
    • (2011) Biochim. Biophys. Acta , vol.1808 , pp. 2724-2733
    • Khalifat, N.1    Fournier, J.B.2    Angelova, M.I.3    Puff, N.4
  • 47
    • 0037174138 scopus 로고    scopus 로고
    • Cardiolipin: A proton trap for oxidative phosphorylation
    • Haiens, T. H.; Dencher, N. A. Cardiolipin: a proton trap for oxidative phosphorylation FEBS Lett. 2002, 528, 35-39
    • (2002) FEBS Lett. , vol.528 , pp. 35-39
    • Haiens, T.H.1    Dencher, N.A.2
  • 48
    • 0035803487 scopus 로고    scopus 로고
    • Specific roles of protein-phospholipid interactions in the yeast cytochrome bc1 complex structure
    • Lange, C.; Nett, J. H.; Trumpower, B. L.; Hunte, C. Specific roles of protein-phospholipid interactions in the yeast cytochrome bc1 complex structure EMBO J. 2001, 20, 6591-600
    • (2001) EMBO J. , vol.20 , pp. 6591-6600
    • Lange, C.1    Nett, J.H.2    Trumpower, B.L.3    Hunte, C.4
  • 49
    • 0023668750 scopus 로고
    • Binding of Alkaline-Earth Metal-Cations and Some Anions to Phosphatidylcholine Liposomes
    • Tatulian, S. A. Binding of Alkaline-Earth Metal-Cations and Some Anions to Phosphatidylcholine Liposomes Eur. J. Biochem. 1987, 170, 413-420
    • (1987) Eur. J. Biochem. , vol.170 , pp. 413-420
    • Tatulian, S.A.1
  • 50
    • 0034046072 scopus 로고    scopus 로고
    • Strength of Ca2+ binding to retinal lipid membranes: Consequences for lipid organization
    • Huster, D.; Arnold, K.; Gawrisch, K. Strength of Ca2+ binding to retinal lipid membranes: Consequences for lipid organization Biophys. J. 2000, 78, 3011-3018
    • (2000) Biophys. J. , vol.78 , pp. 3011-3018
    • Huster, D.1    Arnold, K.2    Gawrisch, K.3
  • 51
    • 0034213203 scopus 로고    scopus 로고
    • A Fourier transform infrared spectroscopic study of the interaction of alkaline earth cations with the negatively charged phospholipid 1,2-dimyristoyl-sn-glycero-3-phosphoglycerol
    • Garidel, P.; Blume, A.; Hubner, W. A Fourier transform infrared spectroscopic study of the interaction of alkaline earth cations with the negatively charged phospholipid 1,2-dimyristoyl-sn-glycero-3-phosphoglycerol Biochim. Biophys. Acta, Biomembr. 2000, 1466, 245-259
    • (2000) Biochim. Biophys. Acta, Biomembr. , vol.1466 , pp. 245-259
    • Garidel, P.1    Blume, A.2    Hubner, W.3
  • 52
    • 0023662528 scopus 로고
    • Calcium-Binding to Mixed Cardiolipin Phosphatidylcholine Bilayers as Studied by Deuterium Nuclear-Magnetic-Resonance
    • Macdonald, P. M.; Seelig, J. Calcium-Binding to Mixed Cardiolipin Phosphatidylcholine Bilayers as Studied by Deuterium Nuclear-Magnetic-Resonance Biochemistry 1987, 26, 6292-6298
    • (1987) Biochemistry , vol.26 , pp. 6292-6298
    • MacDonald, P.M.1    Seelig, J.2
  • 54
    • 70350329295 scopus 로고    scopus 로고
    • Divalent metal ion triggered activity of a synthetic antimicrobial in cardiolipin membranes
    • Som, A.; Yang, L.; Wong, G. C.; Tew, G. N. Divalent metal ion triggered activity of a synthetic antimicrobial in cardiolipin membranes J. Am. Chem. Soc. 2009, 131, 15102-3
    • (2009) J. Am. Chem. Soc. , vol.131 , pp. 15102-15103
    • Som, A.1    Yang, L.2    Wong, G.C.3    Tew, G.N.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.