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		Problem Tubulohelical membrane arrays: From the initial observation to the elucidation of nanophysical properties and cellular function Siegfried Reipert, J�zefa Wesierska-Gadek, Sebastian Wienerroither PMC Biophysics 2010, 3:13 (28 June 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Lipids undergo self-assembly to form ordered nonlamellar, nanoperiodic arrays both in vitro and in vivo. As a starting point for functional studies of these structures we found a connection between tubulohelical membrane arrays and primary cilia.
		Letter Bistability in the actin cortex Carsten Beta PMC Biophysics 2010, 3:12 (24 June 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Multi-color fluorescence imaging experiments of wave forming Dictyostelium cells have revealed that actin waves separate two domains of the cell cortex that differ in their actin structure and phosphoinositide composition. We propose a bistable model of actin dynamics to account for these experimental observation.
		Research article Monte Carlo Simulations indicate that Chromati: Nanostructure is accessible by Light Microscopy Philipp M Diesinger, Dieter W Heermann PMC Biophysics 2010, 3:11 (10 June 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this work we determine the radial pair distribution function of chromatin described by our E2A model and find that the dominant peaks which characterize the chromatin structure are very robust in several ways: They can still be identified in the case of chromatin fibers with reasonable linker histone and nucleosome defect rates as well as in the 2D case after a projection like in most high-res light microscopy experiments.
		Research article Combined molecular dynamics and continuum solvent studies of the pre-pore Cry4Aa trimer suggest its stability in solution and how it may form pore Taveechai Taveecharoenkool, Chanan Angsuthanasombat, Chalermpol Kanchanawarin PMC Biophysics 2010, 3:10 (13 May 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Cry4Aa toxin is one of the mosquito-larvicidal proteins produced by Bacillus thuringiensis, and is thought to form lethal trimeric pores in the larval gut membrane. A full-atomic pre-pore structure of the Cry4Aa trimer reveals that Cry4Aa toxin uses the amino acid residues on alpha-helices 3, 4 and 6 to form trimer.
		Research article Live cell flattening — traditional and novel approaches Christian Westendorf, Albert J Bae, Christoph Erlenkamper, Edouard Galland, Carl Franck, Eberhard Bodenschatz, Carsten Beta PMC Biophysics 2010, 3:9 (19 April 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Eukaryotic cell flattening is valuable for improving microscopic observations, ranging from bright field (BF) to total internal reflection fluorescence (TIRF) microscopy. Here, we review the well known agar overlayer protocol and the oil overlay method. In addition, we present more elaborate microfluidics-based techniques that provide us with a greater level of control.
		Research article Conformational preference of ChaK1 binding peptides: a molecular dynamics study Jiajing Zhang, Christopher A King, Kevin Dalby, Pengyu Ren PMC Biophysics 2010, 3:2 (24 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this work we explored possible kinase-substrate binding modes and the likelihood of an alpha-helix docking interaction, within a kinase active site, using molecular modeling. The simulations indicate that the two substrate peptides are unlikely to bind and react with the ChaK1 kinase in a stable alpha-helical conformation overall.
		Research article Probing the folding of mini-protein Beta3s by two-dimensional infrared spectroscopy; simulation study Christopher NJ Marai, Shaul Mukamel, Jin Wang PMC Biophysics 2010, 3:8 (19 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this study Beta3s was folded by molecular dynamics (MD) simulation and intermediate conformational ensembles were identified. In addition to exploring the folding mechanism the work presented here can be applied in combination with experiment to refine and validate current molecular dynamics force fields.
		Research article Self-organizing actin waves that simulate phagocytic cup structures G�nther Gerisch PMC Biophysics 2010, 3:7 (18 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This report deals with actin waves that are spontaneously generated on the planar, substrate-attached surface of Dictyostelium cells.
		Research article *Nanoscopy of the cellular response to hypoxia by means of fluorescence resonance energy transfer (FRET) and new FRET* software** Christoph Wotzlaw, Silke Gneuss, Rebecca Konietzny, Joachim Fandrey PMC Biophysics 2010, 3:5 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Fluorescence resonance energy transfer (FRET) was established to determine the assembly of the Hypoxia-Inducible-Factor-1 complex and to study the interaction of the alpha-subunit of HIF-1 with O2-sensing hydroxylase. New software was developed to improve the quality and reliability of FRET measurements.
		Research article Two-color STED microscopy reveals different degrees of colocalization between hexokinase-I and the three human VDAC isoforms Daniel Neumann, Johanna B�ckers, Lars Kastrup, Stefan W Hell, Stefan Jakobs PMC Biophysics 2010, 3:4 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The voltage-dependent anion channel (VDAC, also known as mitochondrial porin) is the major transport channel mediating the transport of metabolites, including ATP, across the mitochondrial outer membrane. In this study we show that whereas hVDAC1 and hVDAC2 are localized predominantly within the same distinct domains in the outer membrane, hVDAC3 is mostly uniformly distributed over the surface of the mitochondrion.
		Research article Assembly dynamics of PML nuclear bodies in living cells Peter Brand, Thorsten Lenser, Peter Hemmerich PMC Biophysics 2010, 3:3 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Promyelocytic leukemia nuclear bodies (PML NBs) are involved in the regulation of apoptosis, antiviral responses, the DNA damage response and chromatin structure, but their precise biochemical function in these nuclear pathways is unknown. In this study we determined PML NB assembly dynamics by live cell imaging, combined with mathematical modeling.
		Research article Geometric constrains for detecting short actin filaments by cryogenic electron tomography Mikhail Kudryashev, Simone Lepper, Wolfgang Baumeister, Marek Cyrklaff, Friedrich Frischknecht PMC Biophysics 2010, 3:6 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Polymerization of actin into filaments can push membranes forming extensions like filopodia or lamellipodia, which are important during processes such as cell motility and phagocytosis. Here, we investigated Plasmodium sporozoites, the motile forms of the malaria parasite that are transmitted by the mosquito, using cryogenic electron tomography.
		Research article Kinetics of diffusion-controlled enzymatic reactions with charged substrates Benzhuo Lu, J Andrew McCammon PMC Biophysics 2010, 3:1 (18 January 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We show in this work that through numerical solution of the Poisson-Nernst-Planck equations, diffusion-reaction processes can be studied at a variety of conditions including realistically concentrated solutions, high ionic strength, and certainly with non-equilibrium charge distributions.
		Research article Inverse tuning of metal binding affinity and protein stability by altering charged coordination residues in designed calcium binding proteins Anna Maniccia, Wei Yang, Julian A Johnson, Shunyi Li, Harianto Tjong, Huan-Xiang Zhou, Lev A Shaket, Jenny J Yang PMC Biophysics 2009, 2:11 (21 December 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We report a systematic investigation of the role of local charge number and type of coordination residues in Ca2+ binding and protein stability, and observe a striking tradeoff between Ca2+/Ln3+ affinity and protein stability when the net charge of the coordination residues is varied.
		Research article Amplitude distribution of stochastic oscillations in biochemical networks due to intrinsic noise Moritz Lang, Steffen Waldherr, Frank Allg�wer PMC Biophysics 2009, 2:10 (17 November 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Intrinsic noise is a common phenomenon in biochemical reaction networks and may affect the occurence and amplitude of sustained oscillations in the states of the network. We present a new method to compute the amplitude distribution of the oscillations without the need for long-term stochastic simulations.
		Research article Two-dimensional nanosecond electric field mapping based on cell electropermeabilization Meng-Tse Chen, Chunqi Jiang, P Thomas Vernier, Yu-Hsuan Wu, Martin A Gundersen PMC Biophysics 2009, 2:9 (11 November 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This paper details a live-cell method for measuring a nanosecond pulsed electric field distribution, providing an operationally meaningful calibration for electrode designs for biological applications and permitting visualization of the relative sensitivities of different cell types to nanoelectropulse stimulation.
		Research article Simple modeling of FtsZ polymers on flat and curved surfaces: correlation with experimental in vitro observations Alfonso Paez, Pablo Mateos-Gil, Ines H�rger, Jes�s Mingorance, Germ�n Rivas, Miguel Vicente, Marisela V�lez, Pedro Tarazona PMC Biophysics 2009, 2:8 (22 October 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary FtsZ is a GTPase that assembles at midcell into a dynamic ring that constricts the membrane to induce cell division in the majority of bacteria and some organelles. Based on data derived from the measurement of the in vitro polymerization of E coli FtsZ cell division protein, we have formulated a model in which the fine balance between curvature, flexibility and lateral interactions accounts for structural and dynamic properties of the FtsZ polymers observed with AFM.
		Research article The influence of membrane physical properties on microvesicle release in human erythrocytes Laurie J Gonzalez, Elizabeth Gibbons, Rachel W Bailey, Jeremy Fairbourn, Thaothanh Nguyen, Samantha K Smith, Katrina B Best, Jennifer Nelson, Allan M Judd, John D Bell PMC Biophysics 2009, 2:7 (24 August 2009) Abstract \| Full text \| PDF \| PubMed \| 1 comment \| Editor’s summary Exposure of human erythrocytes to elevated intracellular calcium causes fragments of the cell membrane to be shed as microvesicles. This study tested the hypothesis that microvesicle release depends on microscopic membrane physical properties such as lipid order, fluidity, and composition.
		Research article Zwanzig-Mori projection operators and EEG dynamics: deriving a simple equation of motion David Hsu, Murielle Hsu PMC Biophysics 2009, 2:6 (13 July 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This work shows that EEG dynamics obeys a generalized Langevin equation, pointing out that the parameters of this equation represent macroscopic properties, and identifies two variational principles that allow these parameters to be extracted from experimental data.
		Research article Structural and functional implications of p53 missense cancer mutations Yuhong Tan, Ray Luo PMC Biophysics 2009, 2:5 (26 June 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this study, the stabilities of all core domain missense mutations are predicted and are used to infer their likely inactivation mechanisms. Our correlation analysis shows that loss of protein-protein contacts may be an alternative cause for p53 inactivation.
		Research article *Three-dimensional studies of pathogenic peptides from the c-terminal of Trypanosoma cruzi* ribosomal P proteins and their interaction with a monoclonal antibody structural model** Osvaldo A Mart�n, Myriam E Villegas, Carlos F Aguilar PMC Biophysics 2009, 2:4 (27 May 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This work describes clearly the interactions of the structural elements involved in the autoimmune mechanism of anti-P auto-antibodies cross-reaction and stimulation of the beta1-adrenoreceptor and the visual pigment rhodopsin in the heart. Results from this study could lead eventually to the development of treatments to abolish receptor mediated symptoms in Chagas' disease.
		Mini-review The multiple faces of self-assembled lipidic systems Guillaume Tresset PMC Biophysics 2009, 2:3 (17 April 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary From the plasma membrane of archaebacteria to gene delivery, self-assembled lipidic systems have left their mark in cell biology and nanobiotechnology; however, the underlying physics is yet to be fully unraveled.
		Research article An effective all-atom potential for proteins Anders Irb�ck, Simon Mitternacht, Sandipan Mohanty PMC Biophysics 2009, 2:2 (8 April 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We describe and test an implicit solvent all-atom potential for simulations of protein folding and aggregation. The potential is developed through studies of structural and thermodynamic properties of 17 peptides with diverse secondary structure.
		Research article Membrane protein dynamics: limited lipid control Bal�zs Szalontai PMC Biophysics 2009, 2:1 (6 February 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Correlation of lipid disorder with membrane protein dynamics has been studied with infrared spectroscopy, by combining data characterizing lipid phase, protein structure and, via hydrogen-deuterium exchange, protein dynamics. In all membranes studied, dynamics seemed to be governed by lipids around the low-temperature limit, and by proteins around the high-temperature limit of membrane functionality.
		Research article Robustness, dissipations and coherence of the oscillation of circadian clock: potential landscape and flux perspectives Jin Wang, Li Xu, Erkang Wang PMC Biophysics 2008, 1:7 (30 December 2008) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We have uncovered the underlying potential energy landscape of a simple cyanobacteria biochemical network, and the corresponding flux which is the driving force for the oscillation of the circadian clock. Our approach is quite general and can be applied to other oscillatory cellular networks.

		Problem Tubulohelical membrane arrays: From the initial observation to the elucidation of nanophysical properties and cellular function Siegfried Reipert, J�zefa Wesierska-Gadek, Sebastian Wienerroither PMC Biophysics 2010, 3:13 (28 June 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Lipids undergo self-assembly to form ordered nonlamellar, nanoperiodic arrays both in vitro and in vivo. As a starting point for functional studies of these structures we found a connection between tubulohelical membrane arrays and primary cilia.
		Letter Bistability in the actin cortex Carsten Beta PMC Biophysics 2010, 3:12 (24 June 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Multi-color fluorescence imaging experiments of wave forming Dictyostelium cells have revealed that actin waves separate two domains of the cell cortex that differ in their actin structure and phosphoinositide composition. We propose a bistable model of actin dynamics to account for these experimental observation.
		Research article Monte Carlo Simulations indicate that Chromati: Nanostructure is accessible by Light Microscopy Philipp M Diesinger, Dieter W Heermann PMC Biophysics 2010, 3:11 (10 June 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this work we determine the radial pair distribution function of chromatin described by our E2A model and find that the dominant peaks which characterize the chromatin structure are very robust in several ways: They can still be identified in the case of chromatin fibers with reasonable linker histone and nucleosome defect rates as well as in the 2D case after a projection like in most high-res light microscopy experiments.
		Research article Combined molecular dynamics and continuum solvent studies of the pre-pore Cry4Aa trimer suggest its stability in solution and how it may form pore Taveechai Taveecharoenkool, Chanan Angsuthanasombat, Chalermpol Kanchanawarin PMC Biophysics 2010, 3:10 (13 May 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Cry4Aa toxin is one of the mosquito-larvicidal proteins produced by Bacillus thuringiensis, and is thought to form lethal trimeric pores in the larval gut membrane. A full-atomic pre-pore structure of the Cry4Aa trimer reveals that Cry4Aa toxin uses the amino acid residues on alpha-helices 3, 4 and 6 to form trimer.
		Research article Live cell flattening — traditional and novel approaches Christian Westendorf, Albert J Bae, Christoph Erlenkamper, Edouard Galland, Carl Franck, Eberhard Bodenschatz, Carsten Beta PMC Biophysics 2010, 3:9 (19 April 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Eukaryotic cell flattening is valuable for improving microscopic observations, ranging from bright field (BF) to total internal reflection fluorescence (TIRF) microscopy. Here, we review the well known agar overlayer protocol and the oil overlay method. In addition, we present more elaborate microfluidics-based techniques that provide us with a greater level of control.
		Research article Conformational preference of ChaK1 binding peptides: a molecular dynamics study Jiajing Zhang, Christopher A King, Kevin Dalby, Pengyu Ren PMC Biophysics 2010, 3:2 (24 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this work we explored possible kinase-substrate binding modes and the likelihood of an alpha-helix docking interaction, within a kinase active site, using molecular modeling. The simulations indicate that the two substrate peptides are unlikely to bind and react with the ChaK1 kinase in a stable alpha-helical conformation overall.
		Research article Probing the folding of mini-protein Beta3s by two-dimensional infrared spectroscopy; simulation study Christopher NJ Marai, Shaul Mukamel, Jin Wang PMC Biophysics 2010, 3:8 (19 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this study Beta3s was folded by molecular dynamics (MD) simulation and intermediate conformational ensembles were identified. In addition to exploring the folding mechanism the work presented here can be applied in combination with experiment to refine and validate current molecular dynamics force fields.
		Research article Self-organizing actin waves that simulate phagocytic cup structures G�nther Gerisch PMC Biophysics 2010, 3:7 (18 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This report deals with actin waves that are spontaneously generated on the planar, substrate-attached surface of Dictyostelium cells.
		Research article *Nanoscopy of the cellular response to hypoxia by means of fluorescence resonance energy transfer (FRET) and new FRET* software** Christoph Wotzlaw, Silke Gneuss, Rebecca Konietzny, Joachim Fandrey PMC Biophysics 2010, 3:5 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Fluorescence resonance energy transfer (FRET) was established to determine the assembly of the Hypoxia-Inducible-Factor-1 complex and to study the interaction of the alpha-subunit of HIF-1 with O2-sensing hydroxylase. New software was developed to improve the quality and reliability of FRET measurements.
		Research article Two-color STED microscopy reveals different degrees of colocalization between hexokinase-I and the three human VDAC isoforms Daniel Neumann, Johanna B�ckers, Lars Kastrup, Stefan W Hell, Stefan Jakobs PMC Biophysics 2010, 3:4 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The voltage-dependent anion channel (VDAC, also known as mitochondrial porin) is the major transport channel mediating the transport of metabolites, including ATP, across the mitochondrial outer membrane. In this study we show that whereas hVDAC1 and hVDAC2 are localized predominantly within the same distinct domains in the outer membrane, hVDAC3 is mostly uniformly distributed over the surface of the mitochondrion.
		Research article Assembly dynamics of PML nuclear bodies in living cells Peter Brand, Thorsten Lenser, Peter Hemmerich PMC Biophysics 2010, 3:3 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Promyelocytic leukemia nuclear bodies (PML NBs) are involved in the regulation of apoptosis, antiviral responses, the DNA damage response and chromatin structure, but their precise biochemical function in these nuclear pathways is unknown. In this study we determined PML NB assembly dynamics by live cell imaging, combined with mathematical modeling.
		Research article Geometric constrains for detecting short actin filaments by cryogenic electron tomography Mikhail Kudryashev, Simone Lepper, Wolfgang Baumeister, Marek Cyrklaff, Friedrich Frischknecht PMC Biophysics 2010, 3:6 (5 March 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Polymerization of actin into filaments can push membranes forming extensions like filopodia or lamellipodia, which are important during processes such as cell motility and phagocytosis. Here, we investigated Plasmodium sporozoites, the motile forms of the malaria parasite that are transmitted by the mosquito, using cryogenic electron tomography.
		Research article Kinetics of diffusion-controlled enzymatic reactions with charged substrates Benzhuo Lu, J Andrew McCammon PMC Biophysics 2010, 3:1 (18 January 2010) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We show in this work that through numerical solution of the Poisson-Nernst-Planck equations, diffusion-reaction processes can be studied at a variety of conditions including realistically concentrated solutions, high ionic strength, and certainly with non-equilibrium charge distributions.
		Research article Inverse tuning of metal binding affinity and protein stability by altering charged coordination residues in designed calcium binding proteins Anna Maniccia, Wei Yang, Julian A Johnson, Shunyi Li, Harianto Tjong, Huan-Xiang Zhou, Lev A Shaket, Jenny J Yang PMC Biophysics 2009, 2:11 (21 December 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We report a systematic investigation of the role of local charge number and type of coordination residues in Ca2+ binding and protein stability, and observe a striking tradeoff between Ca2+/Ln3+ affinity and protein stability when the net charge of the coordination residues is varied.
		Research article Amplitude distribution of stochastic oscillations in biochemical networks due to intrinsic noise Moritz Lang, Steffen Waldherr, Frank Allg�wer PMC Biophysics 2009, 2:10 (17 November 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Intrinsic noise is a common phenomenon in biochemical reaction networks and may affect the occurence and amplitude of sustained oscillations in the states of the network. We present a new method to compute the amplitude distribution of the oscillations without the need for long-term stochastic simulations.
		Research article Two-dimensional nanosecond electric field mapping based on cell electropermeabilization Meng-Tse Chen, Chunqi Jiang, P Thomas Vernier, Yu-Hsuan Wu, Martin A Gundersen PMC Biophysics 2009, 2:9 (11 November 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This paper details a live-cell method for measuring a nanosecond pulsed electric field distribution, providing an operationally meaningful calibration for electrode designs for biological applications and permitting visualization of the relative sensitivities of different cell types to nanoelectropulse stimulation.
		Research article Simple modeling of FtsZ polymers on flat and curved surfaces: correlation with experimental in vitro observations Alfonso Paez, Pablo Mateos-Gil, Ines H�rger, Jes�s Mingorance, Germ�n Rivas, Miguel Vicente, Marisela V�lez, Pedro Tarazona PMC Biophysics 2009, 2:8 (22 October 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary FtsZ is a GTPase that assembles at midcell into a dynamic ring that constricts the membrane to induce cell division in the majority of bacteria and some organelles. Based on data derived from the measurement of the in vitro polymerization of E coli FtsZ cell division protein, we have formulated a model in which the fine balance between curvature, flexibility and lateral interactions accounts for structural and dynamic properties of the FtsZ polymers observed with AFM.
		Research article The influence of membrane physical properties on microvesicle release in human erythrocytes Laurie J Gonzalez, Elizabeth Gibbons, Rachel W Bailey, Jeremy Fairbourn, Thaothanh Nguyen, Samantha K Smith, Katrina B Best, Jennifer Nelson, Allan M Judd, John D Bell PMC Biophysics 2009, 2:7 (24 August 2009) Abstract \| Full text \| PDF \| PubMed \| 1 comment \| Editor’s summary Exposure of human erythrocytes to elevated intracellular calcium causes fragments of the cell membrane to be shed as microvesicles. This study tested the hypothesis that microvesicle release depends on microscopic membrane physical properties such as lipid order, fluidity, and composition.
		Research article Zwanzig-Mori projection operators and EEG dynamics: deriving a simple equation of motion David Hsu, Murielle Hsu PMC Biophysics 2009, 2:6 (13 July 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This work shows that EEG dynamics obeys a generalized Langevin equation, pointing out that the parameters of this equation represent macroscopic properties, and identifies two variational principles that allow these parameters to be extracted from experimental data.
		Research article Structural and functional implications of p53 missense cancer mutations Yuhong Tan, Ray Luo PMC Biophysics 2009, 2:5 (26 June 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary In this study, the stabilities of all core domain missense mutations are predicted and are used to infer their likely inactivation mechanisms. Our correlation analysis shows that loss of protein-protein contacts may be an alternative cause for p53 inactivation.
		Research article *Three-dimensional studies of pathogenic peptides from the c-terminal of Trypanosoma cruzi* ribosomal P proteins and their interaction with a monoclonal antibody structural model** Osvaldo A Mart�n, Myriam E Villegas, Carlos F Aguilar PMC Biophysics 2009, 2:4 (27 May 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary This work describes clearly the interactions of the structural elements involved in the autoimmune mechanism of anti-P auto-antibodies cross-reaction and stimulation of the beta1-adrenoreceptor and the visual pigment rhodopsin in the heart. Results from this study could lead eventually to the development of treatments to abolish receptor mediated symptoms in Chagas' disease.
		Mini-review The multiple faces of self-assembled lipidic systems Guillaume Tresset PMC Biophysics 2009, 2:3 (17 April 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary From the plasma membrane of archaebacteria to gene delivery, self-assembled lipidic systems have left their mark in cell biology and nanobiotechnology; however, the underlying physics is yet to be fully unraveled.
		Research article An effective all-atom potential for proteins Anders Irb�ck, Simon Mitternacht, Sandipan Mohanty PMC Biophysics 2009, 2:2 (8 April 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We describe and test an implicit solvent all-atom potential for simulations of protein folding and aggregation. The potential is developed through studies of structural and thermodynamic properties of 17 peptides with diverse secondary structure.
		Research article Membrane protein dynamics: limited lipid control Bal�zs Szalontai PMC Biophysics 2009, 2:1 (6 February 2009) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Correlation of lipid disorder with membrane protein dynamics has been studied with infrared spectroscopy, by combining data characterizing lipid phase, protein structure and, via hydrogen-deuterium exchange, protein dynamics. In all membranes studied, dynamics seemed to be governed by lipids around the low-temperature limit, and by proteins around the high-temperature limit of membrane functionality.
		Research article Robustness, dissipations and coherence of the oscillation of circadian clock: potential landscape and flux perspectives Jin Wang, Li Xu, Erkang Wang PMC Biophysics 2008, 1:7 (30 December 2008) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary We have uncovered the underlying potential energy landscape of a simple cyanobacteria biochemical network, and the corresponding flux which is the driving force for the oscillation of the circadian clock. Our approach is quite general and can be applied to other oscillatory cellular networks.