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dimka's membrane [71 articles]

当前文献位于 dimka's 文献库 标签分类为 membrane. You can also see everyone's membrane.
  • Performance of the general amber force field in modeling aqueous POPC membrane bilayers.
    J Comput Chem, Vol. 28, No. 12. (12 April 2007), pp. 2051-2058.
    by Balázs Jójárt, Tamás A A Martinek
    posted to simulation membrane md lipid amber by dimka on 2008-11-11 21:48:17 as ** along with 3 people and 1 group xdeupi easybakemuffin viktor21614 LabCompMed
  • Hydration forces between phospholipid bilayers
    Biochimica et Biophysica Acta (BBA) - Reviews on Biomembranes, Vol. 988, No. 3. (6 December 1989), pp. 351-376.
    by RP Rand, VA Parsegian
    posted to simulation review membrane md lipid equilibration by dimka on 2008-10-29 00:10:07 as ** along with 1 person softsimu
  • Molecular dynamics simulation of hydrated phospholipid bilayers.
    Indian journal of biochemistry & biophysics, Vol. 33, No. 6. (December 1996), pp. 431-447.
    by V Kothekar
    posted to dmpc lipid md membrane simulation by dimka on 2008-08-20 19:33:30 as **
  • The Membrane Potential and its Representation by a Constant Electric Field in Computer Simulations.
    Biophysical journal (18 July 2008)
    by Benoit Roux
    posted to emf implicit membrane potential by dimka on 2008-07-22 18:57:28 as ** along with 3 people and 1 group agrossfield paulschlesinger abebe McCammon
  • Mechanism of Na+/H+ Antiporting
    Science, Vol. 317, No. 5839. (10 August 2007), pp. 799-803.
    by Isaiah T Arkin, Huafeng Xu, Morten O Jensen, Eyal Arbely, Estelle R Bennett, Kevin J Bowers, Edmond Chow, Ron O Dror, Michael P Eastwood, Ravenna Flitman-Tene, Brent A Gregersen, John L Klepeis, Istvan Kolossvary, Yibing Shan, David E Shaw
    posted to desmond md membrane simulation by dimka on 2008-07-08 21:34:50 as ** along with 4 people and 1 group sobolevnrm Jporci MMehrotra LamBras baker-group
  • Outer membrane proteins: comparing X-ray and NMR structures by MD simulations in lipid bilayers
    European Biophysics Journal, Vol. 37, No. 2. (11 February 2008), pp. 131-141.
    by Katherine Cox, Peter Bond, Alessandro Grottesi, Marc Baaden, Mark Sansom
    posted to compare md membrane protein simulation by dimka on 2008-06-25 16:48:52 as **
  • Free-energy analysis of the molecular binding into lipid membrane with the method of energy representation.
    The Journal of chemical physics, Vol. 128, No. 19. (21 May 2008)
    by Nobuyuki Matubayasi, Wataru Shinoda, Masaru Nakahara
    posted to deltag free-energy lipids membrane by dimka on 2008-05-27 23:04:38 as **
  • An implicit membrane generalized born theory for the study of structure, stability, and interactions of membrane proteins.
    Biophysical journal, Vol. 85, No. 5. (November 2003), pp. 2900-2918.
    by W Im, M Feig, CL Brooks
    posted to implicit implicit-membrane membrane model by dimka on 2008-05-13 20:56:12 as ** along with 1 person onufriev
  • Biological Membranes: A Molecular Perspective from Computation and Experiment
    (30 July 1996)
    by Kenneth Merz, Benoit Roux
    posted to lipid membrane simulation by dimka on 2008-05-07 07:29:15 as **
  • Implicit membrane models for membrane protein simulation.
    Methods in molecular biology (Clifton, N.J.), Vol. 443 (2008), pp. 181-196.
    by M Feig
    posted to implicit implicit-membrane membrane review by dimka on 2008-05-01 15:17:44 as **
  • Diffusion Coefficient of Fluorescent Phosphatidylinositol 4,5-bisphosphate (PIP2) in the Plasma Membrane of Cells.
    Mol Biol Cell (6 February 2008)
    by Urszula Golebiewska, Marian Nyako, William Woturski, Irina Zaitseva, Stuart McLaughlin
    posted to diffusion membrane pip2 by dimka on 2008-02-11 20:28:38 as **
  • Hydrogen Bonding and Binding of Polybasic Residues with Negatively Charged Mixed Lipid Monolayers.
    Langmuir (23 January 2008)
    by Christian D Lorenz, Jordi Faraudo, Alex Travesset
    posted to charmm dopc dops force-field lipid md membrane pip2 simulations by dimka on 2008-01-24 14:42:43 as **
  • Molecular Dynamics Simulations of Ternary Membrane Mixture: Phosphatidylcholine, Phosphatidic Acid, and Cholesterol.
    J Phys Chem B (5 December 2007)
    by Mary H Cheng, Lu T Liu, Alexander C Saladino, Yan Xu, Pei Tang
    posted to lipid md membrane mixture simulations by dimka on 2007-12-11 00:17:42 as ** along with 2 people and 1 group sobolevnrm easybakemuffin baker-group
  • Dynamics of the Kv1.2 Voltage-Gated K+ Channel in a Membrane Environment
    Biophys. J., Vol. 93, No. 9. (1 November 2007), pp. 3070-3082.
    by Vishwanath Jogini, Benoit Roux
    posted to kv12 md membrane potential simulations voltage by dimka on 2007-11-29 19:32:56 as ** along with 1 person paulschlesinger
  • Electrostatic interactions in phospholipid membranes revealed by coherent 2D IR spectroscopy
    Proceedings of the National Academy of Sciences, Vol. 104, No. 39. (25 September 2007), pp. 15323-15327.
    by VV Volkov, R Chelli, W Zhuang, F Nuti, Y Takaoka, AM Papini, S Mukamel, R Righini
    posted to dmpc experimental lipid md membrane simulation by dimka on 2007-10-31 15:52:35 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Association free energy of dipalmitoylphosphatidylserines in a mixed dipalmitoylphosphatidylcholine membrane.
    Biophys J, Vol. 92, No. 9. (1 May 2007), pp. 3071-3080.
    by Y Rodríguez, M Mezei, R Osman
    posted to dppc dpps fep free-energy md membrane perturbation simulations by dimka on 2007-10-03 19:15:53 as **
  • ProtSqueeze: Simple and Effective Automated Tool for Setting up Membrane Protein Simulations.
    J Chem Inf Model (25 July 2007)
    by Semen O Yesylevskyy
    posted to tool software protein membrane insert by dimka on 2007-07-27 16:57:17 as **
  • Short range order and collective dynamics of DMPC bilayers. A comparison between molecular dynamics simulations, x-ray, and neutron scattering experiments
    Biophys. J. (13 July 2007), biophysj.107.104885.
    by Jochen S Hub, Tim Salditt, Maikel C Rheinstadter, Bert L de Groot
    posted to dmpc lipid md membrane by dimka on 2007-07-22 06:40:35 as ** along with 3 people and 1 group sobolevnrm char paulschlesinger baker-group
  • Molecular Dynamics Simulations of C-Terminal Decapeptide of Gastrin-Releasing Peptide in DMPC Bilayers: Structure, Stability and Orientation of the Peptide Hormone Within the Bilayers
    Protein and Peptide Letters, Vol. 14, No. 6. (June 2007), pp. 590-596.
    by Priyanka Prakash, , Ramasubbu Sankararamakrishnan,
    posted to dmpc lipid md membrane pro by dimka on 2007-07-22 06:28:44 as **
  • Molecular dynamics simulation of an archaeal lipid bilayer with sodium chloride.
    Phys Chem Chem Phys, Vol. 9, No. 5. (7 February 2007), pp. 643-650.
    by K Shinoda, W Shinoda, M Mikami
    posted to lipid md membrane simulations by dimka on 2007-04-26 04:11:50 as **
  • Convergence of molecular dynamics simulations of membrane proteins.
    Proteins (22 January 2007)
    by Alan Grossfield, Scott E E Feller, Michael C C Pitman
    posted to md membrane pca rhodopsin simulations by dimka on 2007-01-25 17:54:43 as ** along with 2 people RamuAnandakrishnan nigham
  • Molecular simulation study of the influence of small molecules on the dynamic and structural properties of phospholipid bilayers.
    Chem Biodivers, Vol. 2, No. 11. (November 2005), pp. 1503-1516.
    by AK Sum
    posted to lipid md membrane by dimka on 2007-01-03 18:36:19 as ** along with 1 person softsimu
  • Molecular dynamics simulation of a palmitoyl-oleoyl phosphatidylserine bilayer with Na+ counterions and NaCl.
    Biophys J, Vol. 86, No. 3. (March 2004), pp. 1601-1609.
    by P Mukhopadhyay, L Monticelli, DP Tieleman
    posted to bilayer lipid md membrane pops properties by dimka on 2006-12-11 01:32:28 as ** along with 3 people easybakemuffin softsimu robertvacha
  • Dynamics in atomistic simulations of phospholipid membranes: Nuclear magnetic resonance relaxation rates and lateral diffusion.
    J Chem Phys, Vol. 125, No. 20. (28 November 2006)
    by J Wohlert, O Edholm
    posted to diffusion dppc lipid md membrane nmr by dimka on 2006-12-07 18:43:57 as **
  • Ion Conduction through MscS as Determined by Electrophysiology and Simulation.
    Biophys J (17 November 2006)
    by Marcos Sotomayor, Valeria Vasquez, Eduardo Perozo, Klaus Schulten
    posted to channel lipid membrane mscs simulation by dimka on 2006-11-28 20:25:33 as *****
  • Coarse-grained molecular dynamics simulations of membrane proteins and peptides.
    J Struct Biol (20 October 2006)
    by Peter J J Bond, John Holyoake, Anthony Ivetac, Syma Khalid, Mark S P S Sansom
    posted to coarse-grain lipid membrane protein by dimka on 2006-11-28 20:20:31 as ** along with 2 people choonpeng sunnytov
  • Atomistic simulations of biologically realistic transmembrane potential gradients.
    J Chem Phys, Vol. 121, No. 22. (8 December 2004), pp. 10847-10851.
    by JN Sachs, PS Crozier, TB Woolf
    posted to ion lipid md membrane membrane_potential by dimka on 2006-11-10 22:28:44 as **
  • PIP2 and PIP3: complex roles at the cell surface.
    Cell, Vol. 100, No. 6. (17 March 2000), pp. 603-606.
    by MP Czech
    posted to membrane physiology review transcription by dimka on 2006-09-27 01:24:20 as **
  • Mixed atomistic and coarse-grained molecular dynamics: simulation of a membrane-bound ion channel.
    J Phys Chem B Condens Matter Mater Surf Interfaces Biophys, Vol. 110, No. 31. (10 August 2006), pp. 15045-15048.
    by Q Shi, S Izvekov, GA Voth
    posted to coarse-grain lipid md membrane protein by dimka on 2006-09-25 22:05:23 as ** along with 1 person RamuAnandakrishnan
  • FRET Study of Membrane Proteins: Simulation-Based Fitting for Analysis of Membrane Protein Embedment and Association
    Biophys. J., Vol. 91, No. 2. (15 July 2006), pp. 454-466.
    by Petr V Nazarov, Rob B Koehorst, Werner L Vos, Vladimir V Apanasovich, Marcus A Hemminga
    posted to fret lipid membrane protein by dimka on 2006-09-12 19:36:43 as ** along with 1 person xdeupi
  • Effect of Cholesterol on the Properties of Phospholipid Membranes. 4. Interatomic Voids.
    J Phys Chem B Condens Matter Mater Surf Interfaces Biophys, Vol. 109, No. 34. (1 September 2005), pp. 16490-16502.
    by Marina G Alinchenko, Vladimir P Voloshin, Nikolai N Medvedev, Mihaly Mezei, Lívia Partay, Pal Jedlovszky
    posted to cholesterol dmpc dynamic lipids md membrane simulation by dimka on 2006-07-27 21:25:14 as **
  • A computational model for the electrostatic sequestration of PI(4,5)P2 by membrane-adsorbed basic peptides.
    Biophys J, Vol. 86, No. 4. (April 2004), pp. 1969-1986.
    by J Wang, A Gambhir, S McLaughlin, D Murray
    posted to electrostatics membrane pip2 by dimka on 2006-07-11 05:32:00 as **
  • To B or not to B: PIP2 answers the question.
    Dev Cell, Vol. 8, No. 2. (February 2005), pp. 138-139.
    by D Murray, B Honig
    posted to lipid md membrane pip2 by dimka on 2006-07-11 05:28:41 as **
  • Indole Localization in Lipid Membranes Revealed by Molecular Simulation.
    Biophys J (30 June 2006)
    by Kristen E E Norman, Hugh Nymeyer
    posted to dynamics indole lipid md membrane by dimka on 2006-07-08 21:25:53 as **
  • Coarse-grained simulations of lipid bilayers.
    J Chem Phys, Vol. 121, No. 23. (15 December 2004), pp. 11942-11948.
    by MJ Stevens
    posted to bilayer coarse-grain lipid membrane by dimka on 2006-07-06 20:07:24 as ** along with 1 person baaden
  • Theoretical study of protein--lipid interactions in bilayer membranes.
    Proc Natl Acad Sci U S A, Vol. 75, No. 4. (April 1978), pp. 1616-1619.
    by JC Owicki, MW Springgate, HM McConnell
    posted to lipid-protein membrane by dimka on 2006-07-06 19:59:15 as **
  • Monte Carlo simulation studies of lipid order parameter profiles near integral membrane proteins
    Biophys. J., Vol. 59, No. 2. (1 February 1991), pp. 261-270.
    by MM Sperotto, OG Mouritsen
    posted to lipid lipid-order-parameter lipid-protein membrane protein by dimka on 2006-06-29 22:11:34 as **
  • Molecular Dynamics study of MscL interactions with a curved lipid bilayer.
    Biophys J (2 June 2006)
    by Grischa R R Meyer, Justin Gullingsrud, Klaus Schulten, Boris Martinac
    posted to lipids md mechanosensitive membrane mscl simulation by dimka on 2006-06-09 18:38:04 as ***
  • Model for the structure of the lipid bilayer.
    Proc Natl Acad Sci U S A, Vol. 88, No. 3. (1 February 1991), pp. 892-896.
    by RW Pastor, RM Venable, M Karplus
    posted to membrane simulation by dimka on 2006-06-09 18:32:25 as **
  • The effect of calcium on the properties of charged phospholipid bilayers.
    Biochim Biophys Acta (19 April 2006)
    by Ulf R R Pedersen, Chad Leidy, Peter Westh, Günther H H Peters
    posted to charged dynamic lipid membrane molecular by dimka on 2006-05-30 19:52:24 as **
  • The analysis of intact phosphoinositides in biological samples.
    J Lipid Res (21 April 2006)
    by Trevor R R Pettitt, Stephen K K Dove, Anneke Lubben, Simon D J D Calaminus, Michael J O J Wakelam
    posted to inositol membrane pip2 by dimka on 2006-04-26 18:29:22 as **
  • Molecular Simulation Study of Structural and Dynamic Properties of Mixed DPPC/DPPE Bilayers.
    Biophys J, Vol. 90 (13 March 2006), pp. 3951-3965.
    by Sukit Leekumjorn, Amadeu KK Sum
    posted to dppc dppe lipid md membrane by dimka on 2006-03-18 20:59:35 as ** along with 4 people sunhwan yoel_rf easybakemuffin softsimu
  • Effect of lipid composition on the "membrane response" induced by a fusion peptide.
    Biochemistry, Vol. 44, No. 44. (8 November 2005), pp. 14626-14637.
    by PE Volynsky, AA Polyansky, NA Simakov, AS Arseniev, RG Efremov
    posted to simulstions membrane protein md by dimka on 2006-03-06 16:23:27 as **
  • A molecular dynamics study of an archaeal tetraether lipid membrane: comparison with a dipalmitoylphosphatidylcholine lipid bilayer.
    Lipids, Vol. 40, No. 10. (October 2005), pp. 1023-1030.
    by JP Nicolas
    posted to dppc membrane simulation by dimka on 2006-03-06 16:16:42 as **
  • Molecular dynamics simulations of large integral membrane proteins with an implicit membrane model.
    J Phys Chem B Condens Matter Mater Surf Interfaces Biophys, Vol. 110, No. 1. (12 January 2006), pp. 548-556.
    by S Tanizaki, M Feig
    posted to gb implicit md membrane protein water by dimka on 2006-03-06 16:15:20 as **** along with 2 people and 1 group onufriev xdeupi LabCompMed
  • Model of an asymmetric DPPC/DPPS membrane: effect of asymmetry on the lipid properties. A molecular dynamics simulation study.
    J Phys Chem B Condens Matter Mater Surf Interfaces Biophys, Vol. 110, No. 5. (9 February 2006), pp. 2358-2363.
    by JJ López Cascales, TF Otero, BD Smith, C González, M Márquez
    posted to dppc dpps lipid membrane by dimka on 2006-03-06 16:10:53 as ****
  • Insertion and Assembly of Membrane Proteins via Simulation.
    J Am Chem Soc, Vol. 128, No. 8. (1 March 2006), pp. 2697-2704.
    by PJ Bond, MS Sansom
    posted to insertion membrane protein protocol by dimka on 2006-03-06 16:07:30 as ** along with 2 people choonpeng loison
  • A molecular dynamics investigation of mono and dimeric states of the outer membrane enzyme OMPLA.
    J Mol Biol, Vol. 331, No. 1. (1 August 2003), pp. 177-189.
    by M Baaden, C Meier, MS Sansom
    posted to channel md membrane ompla simulation by dimka on 2006-02-10 14:08:29 as ** along with 1 person baaden
  • Elasticity and phase behavior of DPPC membrane modulated by cholesterol, ergosterol, and ethanol.
    Biophys J, Vol. 89, No. 4. (October 2005), pp. 2481-2493.
    by KJ Tierney, DE Block, ML Longo
    posted to cholesterol dppc elasticity ergosterol ethanol membrane phase by dimka on 2005-12-25 22:30:32 as **
  • Activation of the atrial KACh channel by the betagamma subunits of G proteins or intracellular Na+ ions depends on the presence of phosphatidylinositol phosphates.
    Proc Natl Acad Sci U S A, Vol. 95, No. 3. (3 February 1998), pp. 1307-1312.
    by JL Sui, J Petit-Jacques, DE Logothetis
    posted to adenosine cell gating gtp-binding guanosine membrane muscarinic myocardium phosphatidylinositol potassium proteins receptors signal sodium transduction triphosphate pip2 by dimka on 2005-11-23 19:47:32 as **
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