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OndrejMarsalek's watchlist [249 articles]

Recent papers matching OndrejMarsalek's watchlist criteria
  • Permeation Process of Small Molecules across Lipid Membranes Studied by Molecular Dynamics Simulations
    J. Phys. Chem., Vol. 100, No. 41. (10 October 1996), pp. 16729-16738.
    by SJ Marrink, HJC Berendsen
    posted to membrane by robertvacha on 2008-07-24 08:25:27 as ** along with 2 people andreasauerwein ashaytan
  • Article DOI Lookup
    posted to water membrane by robertvacha on 2008-07-24 08:24:04 as **
  • Continuum molecular electrostatics, salt effects and counterion binding. A review of the Poisson-Boltzmann theory and its modifications.
    Biopolymers, Vol. 9999, No. 9999. (2007), NA.
    by Paweł Grochowski, Joanna Trylska
    posted to ion-binding continuum-model by mikaellund on 2008-07-22 22:01:36 as ** along with 2 people and 1 group sobolevnrm softsimu baker-group
  • Specific Ion Binding to Non-Polar Surface Patches of Proteins
    J. Am. Chem. Soc., Vol. Submitted (2008)
    by M Lund, L Vrbka, P Jungwirth
    posted to lund20080c by mikaellund on 2008-07-17 19:25:10 as **
  • An Electrostatic Steering Mechanism of Cdc42 Recognition by Wiskott-Aldrich Syndrome Proteins
    Molecular Cell, Vol. 20, No. 2. (28 October 2005), pp. 313-324.
    by Lars Hemsath, Radovan Dvorsky, Dennis Fiegen, Marie-France Carlier, Mohammad R Ahmadian
    posted to protein electrostatic alignment by mikaellund on 2008-07-08 09:25:02 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Salt Enhances Calmodulin-Target Interaction
    Biophys. J., Vol. 90, No. 8. (15 April 2006), pp. 2903-2910.
    by Ingemar Andre, Tonu Kesvatera, Bo Jonsson, Sara Linse
    posted to protein electrostatic aggregation by mikaellund on 2008-07-08 08:49:08 as **
  • Salting the Charged Surface: pH and Salt Dependence of Protein G B1 Stability
    Biophys. J., Vol. 90, No. 8. (15 April 2006), pp. 2911-2921.
    by Stina Lindman, Wei-Feng Xue, Olga Szczepankiewicz, Mikael C Bauer, Hanna Nilsson, Sara Linse
    posted to protein electrostatic by mikaellund on 2008-07-08 08:45:42 as **
  • How Hofmeister ion interactions affect protein stability.
    Biophys. J., Vol. 71, No. 4. (1 October 1996), pp. 2056-2063.
    by RL Baldwin
    posted to protein hofmeister aggregation by mikaellund on 2008-07-08 08:39:31 as **
  • Why forces between proteins follow different Hofmeister series for pH above and below pI
    Biophysical Chemistry, Vol. 117, No. 3. (3 October 2005), pp. 217-224.
    by M Boström, FW Tavares, S Finet, F Skouri-Panet, A Tardieu, BW Ninham
    posted to protein ion-binding hofmeister aggregation by mikaellund on 2008-07-07 14:46:06 as **
  • The Hofmeister effect as seen by SAXS in protein solutions
    Current Opinion in Colloid & Interface Science, Vol. 9, No. 1-2. (August 2004), pp. 112-116.
    by S Finet, F Skouri-Panet, M Casselyn, F Bonneté, A Tardieu
    posted to virial protein hofmeister aggregation by mikaellund on 2008-07-07 13:53:54 as **
  • Ion Specific Protein Assembly and Hydrophobic Surface Forces
    Phys. Rev. Lett., Vol. 100, No. 25. (2008), 258105.
    by Mikael Lund, Pavel Jungwirth, Clifford E Woodward
    posted to ion-binding hydrophobic hofmeister aggregation by mikaellund on 2008-06-26 18:24:08 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Forces between Protein Molecules in Solution Arising from Fluctuations in Proton Charge and Configuration
    Proc Natl Acad Sci USA, Vol. 38 (1952), pp. 863-71.
    by J Kirkwood, J Shumaker
    posted to titration statmek protein electrostatic by mikaellund on 2008-06-25 11:58:00 as **
  • Equation of State Calculations by Fast Computing Machines
    J.~Chem. Phys., Vol. 21 (1953), pp. 1087-1097.
    by NA Metropolis, AW Rosenbluth, MN Rosenbluth, A Teller, E Teller
    posted to statmek by mikaellund on 2008-06-25 11:54:23 as **
  • Untersuchungen Über Ionenassoziation. I.
    Kgl. Danske Vid. Selsk. Mat.-fys. Medd., Vol. 7, No. 9. (1926), pp. 1-48.
    by N Bjerrum
    posted to statmek continuum-model by mikaellund on 2008-06-25 11:52:42 as **
  • Specific Ion Effects in Solutions of Globular Proteins: Comparison between Analytical Models and S imulation
    Journal of Physical Chemistry B, Vol. 109, No. 51. (2005), pp. 24489-24494.
    by M Bostrom, FW Tavares, D Bratko, BW Ninham
    posted to hofmeister continuum-model by mikaellund on 2008-06-25 11:51:03 as **
  • Theory of the Stability of Lyophobic Colloids
    (1948)
    by EJW Verwey, Th
    posted to continuum-model by mikaellund on 2008-06-25 11:49:21 as **
  • Theory of the Stability of Strongly Charged Lyophobic Sols and of the Adhesion of Strongly Charged Particles in Solutions of Electrolytes
    Acta Phys. Chim. URSS, Vol. 14 (1941), pp. 633-662.
    by BV Derjaguin, L Landau
    posted to continuum-model by mikaellund on 2008-06-25 11:48:42 as **
  • Atomistic simulations of biologically realistic transmembrane potential gradients
    The Journal of Chemical Physics, Vol. 121, No. 22. (2004), pp. 10847-10851.
    by Jonathan N Sachs, Paul S Crozier, Thomas B Woolf
    posted to membrane asymmetry by robertvacha on 2008-06-25 07:47:18 as **
  • Improved SO2 Control with New Method for At-line Measurements
    (2003)
    by B Skands, K Pedersen, M Lund, T Pedersen
    posted to himself by mikaellund on 2008-06-24 18:15:04 as **
  • A molecular dynamics study of polarizable water
    Molecular Physics, Vol. 68, No. 3. (1989), pp. 563-581.
    by Peter Ahlström, Anders Wallqvist, Sven Engström, Bo Jönsson
    posted to md forcefield computing by mikaellund on 2008-06-24 14:45:09 as **
  • Phospholipid composition of the mammalian red cell membrane can be rationalized by a superlattice model
    Proceedings of the National Academy of Sciences, Vol. 95, No. 9. (28 April 1998), pp. 4964-4969.
    by JA Virtanen, KH Cheng, P Somerharju
    posted to membrane by robertvacha on 2008-06-20 19:36:32 as ** along with 1 person ferin
  • Molecular dynamics simulation of dipalmitoylphosphatidylserine bilayer with Na+ counterions.
    Biophysical journal, Vol. 82, No. 4. (April 2002), pp. 1818-1827.
    by SA Pandit, ML Berkowitz
    posted to membrane-ions membrane by robertvacha on 2008-06-20 19:20:05 as **
  • An algorithm to describe molecular scale rugged surfaces and its application to the study of a water/lipid bilayer interface
    The Journal of Chemical Physics, Vol. 119, No. 4. (2003), pp. 2199-2205.
    by Sagar A Pandit, David Bostick, Max L Berkowitz
    posted to membrane by robertvacha on 2008-06-20 19:19:45 as **
  • Mixed Bilayer Containing Dipalmitoylphosphatidylcholine and Dipalmitoylphosphatidylserine: Lipid Complexation, Ion Binding, and Electrostatics
    Biophys. J., Vol. 85, No. 5. (1 November 2003), pp. 3120-3131.
    by Sagar A Pandit, David Bostick, Max L Berkowitz
    posted to membrane-ions membrane by robertvacha on 2008-06-20 19:19:03 as ** along with 1 person softsimu
  • Complexation of phosphatidylcholine lipids with cholesterol.
    Biophysical journal, Vol. 86, No. 3. (March 2004), pp. 1345-1356.
    by SA Pandit, D Bostick, ML Berkowitz
    posted to membrane by robertvacha on 2008-06-20 19:18:27 as ** along with 1 person paulschlesinger
  • Molecular dynamics study of charged dendrimers in salt-free solution: Effect of counterions
    The Journal of Chemical Physics, Vol. 124, No. 9. (2006)
    by Andrey A Gurtovenko, Sergey V Lyulin, Mikko Karttunen, Ilpo Vattulainen
    posted to membrane by robertvacha on 2008-06-20 19:13:31 as ** along with 1 person softsimu
  • Molecular dynamics study of charged dendrimers in salt-free solution: effect of counterions.
    The Journal of chemical physics, Vol. 124, No. 9. (7 March 2006)
    by AA Gurtovenko, SV Lyulin, M Karttunen, I Vattulainen
    posted to membrane by robertvacha on 2008-06-20 19:13:07 as **
  • Atomic-Scale Structure and Electrostatics of Anionic Palmitoyloleoylphosphatidylglycerol Lipid Bilayers with Na+ Counterions
    Biophys. J., Vol. 92, No. 4. (15 February 2007), pp. 1114-1124.
    by Wei Zhao, Tomasz Rog, Andrey A Gurtovenko, Ilpo Vattulainen, Mikko Karttunen
    posted to membrane-ions membrane by robertvacha on 2008-06-20 19:11:36 as ** along with 1 person softsimu
  • Molecular Mechanism for Lipid Flip-Flops
    J. Phys. Chem. B, Vol. 111, No. 48. (6 December 2007), pp. 13554-13559.
    by AA Gurtovenko, I Vattulainen
    posted to membrane asymmetry by robertvacha on 2008-06-20 19:10:24 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Molecular Dynamics Simulation of a Dipalmitoylphosphatidylcholine Bilayer with NaCl
    Biophys. J., Vol. 84, No. 6. (1 June 2003), pp. 3743-3750.
    by Sagar A Pandit, David Bostick, Max L Berkowitz
    posted to membrane-ions by robertvacha on 2008-06-20 19:01:03 as ** along with 1 person softsimu
  • Aqueous solutions next to phospholipid membrane surfaces: Insights from simulations
    Chem. Rev., Vol. 106, No. 4. (2006), pp. 1527-1539.
    by ML Berkowitz, DL Bostick, S Pandit
    posted to membrane-ions membrane by robertvacha on 2008-06-20 19:00:39 as ** along with 1 person softsimu
  • Effect of sodium chloride on a lipid bilayer.
    Biophysical journal, Vol. 85, No. 3. (September 2003), pp. 1647-1655.
    by RA Böckmann, A Hac, T Heimburg, H Grubmüller
    posted to membrane-ions by robertvacha on 2008-06-20 18:59:09 as **
  • Molecular simulation analysis and X-ray absorption measurement of Ca2+, K+ and Cl- ions in solution.
    The journal of physical chemistry. B, Vol. 110, No. 47. (30 November 2006), pp. 23644-23654.
    by LX Dang, GK Schenter, VA Glezakou, JL Fulton
    posted to md by robertvacha on 2008-06-20 18:58:22 as **
  • Cationic DMPC/DMTAP Lipid Bilayers: Molecular Dynamics Study
    Biophys. J., Vol. 86, No. 6. (1 June 2004), pp. 3461-3472.
    by Andrey A Gurtovenko, Michael Patra, Mikko Karttunen, Ilpo Vattulainen
    posted to membrane by robertvacha on 2008-06-20 18:56:47 as ** along with 1 person softsimu
  • Effect of Monovalent Salt on Cationic Lipid Membranes As Revealed by Molecular Dynamics Simulations
    J. Phys. Chem. B, Vol. 109, No. 44. (10 November 2005), pp. 21126-21134.
    by AA Gurtovenko, M Miettinen, M Karttunen, I Vattulainen
    posted to membrane-ions by robertvacha on 2008-06-20 18:56:23 as ** along with 1 person softsimu
  • Pore formation coupled to ion transport through lipid membranes as induced by transmembrane ionic charge imbalance: atomistic molecular dynamics study.
    J Am Chem Soc, Vol. 127, No. 50. (21 December 2005), pp. 17570-17571.
    by AA Gurtovenko, I Vattulainen
    posted to membrane-ions by robertvacha on 2008-06-20 18:56:09 as ** along with 1 person divadyrral
  • Ion Leakage through Transient Water Pores in Protein-Free Lipid Membranes Driven by Transmembrane Ionic Charge Imbalance
    Biophys. J., Vol. 92, No. 6. (15 March 2007), pp. 1878-1890.
    by Andrey A Gurtovenko, Ilpo Vattulainen
    posted to membrane-ions by robertvacha on 2008-06-20 18:55:36 as ** along with 1 person softsimu
  • Lipid transmembrane asymmetry and intrinsic membrane potential: two sides of the same coin.
    Journal of the American Chemical Society, Vol. 129, No. 17. (2 May 2007), pp. 5358-5359.
    by AA Gurtovenko, I Vattulainen
    posted to membrane by robertvacha on 2008-06-20 18:55:17 as **
  • Structure and Dynamics of Sphingomyelin Bilayer: Insight Gained through Systematic Comparison to Phosphatidylcholine
    Biophys. J., Vol. 87, No. 5. (1 November 2004), pp. 2976-2989.
    by Perttu Niemela, Marja T Hyvonen, Ilpo Vattulainen
    posted to membrane md by robertvacha on 2008-06-20 17:30:41 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 membrane md by robertvacha on 2008-06-20 17:29:24 as ** along with 3 people dimka easybakemuffin softsimu
  • A Molecular Dynamics Study of the Pores Formed by Escherichia coli OmpF Porin in a Fully Hydrated Palmitoyloleoylphosphatidylcholine Bilayer
    Biophys. J., Vol. 74, No. 6. (1 June 1998), pp. 2786-2801.
    by DP Tieleman, HJ C Berendsen
    posted to membrane md by robertvacha on 2008-06-20 17:28:35 as ** along with 1 person softsimu
  • Alamethicin helices in a bilayer and in solution: molecular dynamics simulations.
    Biophysical journal, Vol. 76, No. 1 Pt 1. (January 1999), pp. 40-49.
    by DP Tieleman, MS Sansom, HJ Berendsen
    posted to membrane md by robertvacha on 2008-06-20 17:27:43 as **
  • Molecular dynamics simulations of a fluid bilayer of dipalmitoylphosphatidylcholine at full hydration, constant pressure, and constant temperature.
    Biophysical journal, Vol. 72, No. 5. (May 1997), pp. 2002-2013.
    by O Berger, O Edholm, F Jähnig
    posted to membrane md by robertvacha on 2008-06-20 17:24:58 as **
  • Phospholipids in animal eukaryotic membranes: transverse asymmetry and movement.
    Biochem J, Vol. 294 ( Pt 1) (15 August 1993), pp. 1-14.
    by A Zachowski
    posted to membrane asymmetry by robertvacha on 2008-06-20 17:22:59 as ** along with 1 person davidng
  • Settle: An analytical version of the SHAKE and RATTLE algorithm for rigid water models
    Journal of Computational Chemistry, Vol. 13, No. 8. (1992), pp. 952-962.
    by Shuichi Miyamoto, Peter A Kollman
    posted to md gromacs by robertvacha on 2008-06-20 17:19:49 as ** along with 4 people jwagoner tji softsimu ashaytan
  • GROMACS: fast, flexible, and free.
    J Comput Chem, Vol. 26, No. 16. (December 2005), pp. 1701-1718.
    by D Van Der Spoel, E Lindahl, B Hess, G Groenhof, AE Mark, HJ Berendsen
    posted to gromacs by robertvacha on 2008-06-20 17:13:38 as ** along with 9 people and 2 groups dimka jwm ttjoseph bilab rabio Dinler tji softsimu ashaytan Radiation_Damage Stressosome
  • GROMACS: A message-passing parallel molecular dynamics implementation
    Computer Physics Communications, Vol. 91, No. 1-3. (2 September 1995), pp. 43-56.
    by HJC Berendsen, D van der Spoel, R van Drunen
    posted to gromacs by robertvacha on 2008-06-20 17:11:56 as ** along with 2 people ffranca tji
  • Effects of monovalent anions of the hofmeister series on DPPC lipid bilayers Part II: modeling the perpendicular and lateral equation-of-state.
    Biophys. J., Vol. 93, No. 5. (2007), pp. 1591-607.
    by E Leontidis, A Aroti, L Belloni, M Dubois, T Zemb
    posted to membrane-ions by robertvacha on 2008-06-20 10:45:12 as **
  • Rigidification of neutral lipid bilayers in the presence of salts.
    Biophys. J., Vol. 93, No. 8. (2007), pp. 2688-96.
    by Georg Pabst, Aden Hodzic, Janez Strancar, Sabine Danner, Michael Rappolt, Peter Laggner
    posted to membrane-ions by robertvacha on 2008-06-20 10:45:12 as **
  • The present state of affairs with Hofmeister effects
    Current Opinion in Colloid & Interface Science, Vol. 9, No. 1-2. (2004)
    by W Kunz
    posted to membrane-ions by robertvacha on 2008-06-20 10:45:11 as **
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