BIOPHYSICAL LETTERS:

Harden McConnell

Complexes in Ternary Cholesterol-Phospholipid Mixtures
Biophys. J. 2005 88: L23-L25; Published ahead of print on February 4, 2005 as doi:10.1529/biophysj.104.058834. [Abstract] [Full Text] [PDF]  

BIOPHYSICAL THEORY AND MODELING:

Paul François

A Model for the Neurospora Circadian Clock
Biophys. J. 2005 88: 2369-2383; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.053975. [Abstract] [Full Text] [PDF]  

Michael I. Monine, Alexander M. Berezhkovskii, Elizabeth J. Joslin, H. Steven Wiley, Douglas A. Lauffenburger, and Stanislav Y. Shvartsman

Ligand Accumulation in Autocrine Cell Cultures
Biophys. J. 2005 88: 2384-2390; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.051425. [Abstract] [Full Text] [PDF]  

Dalit Shental-Bechor, Safak Kirca, Nir Ben-Tal, and Turkan Haliloglu

Monte Carlo Studies of Folding, Dynamics, and Stability in -Helices
Biophys. J. 2005 88: 2391-2402; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.050708. [Abstract] [Full Text] [PDF]  

Alejandra C. Ventura, Luciana Bruno, Angelo Demuro, Ian Parker, and Silvina Ponce Dawson

A Model-Independent Algorithm to Derive Ca²⁺ Fluxes Underlying Local Cytosolic Ca²⁺ Transients
Biophys. J. 2005 88: 2403-2421; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.045260. [Abstract] [Full Text] [PDF]  

Fabio Luciani, Can Kesmir, Michele Mishto, Michal Or-Guil, and Rob J. de Boer

A Mathematical Model of Protein Degradation by the Proteasome
Biophys. J. 2005 88: 2422-2432; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.049221. [Abstract] [Full Text] [PDF]  

Christopher W. Jones, J. C. Wang, R. W. Briehl, and M. S. Turner

Measuring Forces between Protein Fibers by Microscopy
Biophys. J. 2005 88: 2433-2441; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.050856. [Abstract] [Full Text] [PDF]  

Martina Stork, Armin Giese, Hans A. Kretzschmar, and Paul Tavan

Molecular Dynamics Simulations Indicate a Possible Role of Parallel ß-Helices in Seeded Aggregation of Poly-Gln
Biophys. J. 2005 88: 2442-2451; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.052415. [Abstract] [Full Text] [PDF] [Supplemental File]  

Noam Agmon

Proton Pathways in Green Fluorescence Protein
Biophys. J. 2005 88: 2452-2461; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.055541. [Abstract] [Full Text] [PDF]  

Charles W. Wolgemuth, Long Miao, Orion Vanderlinde, Tom Roberts, and George Oster

MSP Dynamics Drives Nematode Sperm Locomotion
Biophys. J. 2005 88: 2462-2471; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.054270. [Abstract] [Full Text] [PDF]  

Eric J. Sorin and Vijay S. Pande

Exploring the Helix-Coil Transition via All-Atom Equilibrium Ensemble Simulations
Biophys. J. 2005 88: 2472-2493; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.051938. [Abstract] [Full Text] [PDF]  

Lorin S. Milescu, Gustav Akk, and Frederick Sachs

Maximum Likelihood Estimation of Ion Channel Kinetics from Macroscopic Currents
Biophys. J. 2005 88: 2494-2515; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.053256. [Abstract] [Full Text] [PDF]  

Eric J. Sorin, Young Min Rhee, and Vijay S. Pande

Does Water Play a Structural Role in the Folding of Small Nucleic Acids?
Biophys. J. 2005 88: 2516-2524; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.055087. [Abstract] [Full Text] [PDF]  

N. G. Cogan and Charles W. Wolgemuth

Pattern Formation by Bacteria-Driven Flow
Biophys. J. 2005 88: 2525-2529; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.053348. [Abstract] [Full Text] [PDF]  

Rudiyanto Gunawan, Yang Cao, Linda Petzold, and Francis J. Doyle, III

Sensitivity Analysis of Discrete Stochastic Systems
Biophys. J. 2005 88: 2530-2540; Published ahead of print on February 4, 2005 as doi:10.1529/biophysj.104.053405. [Abstract] [Full Text] [PDF]  

Baiyu Zhou, David Beckwith, Laura R. Jarboe, and James C. Liao

Markov Chain Modeling of Pyelonephritis-Associated Pili Expression in Uropathogenic Escherichia coli
Biophys. J. 2005 88: 2541-2553; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.052126. [Abstract] [Full Text] [PDF]  

Lars Meinhold and Jeremy C. Smith

Fluctuations and Correlations in Crystalline Protein Dynamics: A Simulation Analysis of Staphylococcal Nuclease
Biophys. J. 2005 88: 2554-2563; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.056101. [Abstract] [Full Text] [PDF]  

CHANNELS, RECEPTORS, AND ELECTRICAL SIGNALING:

Richard H. Henchman, Hai-Long Wang, Steven M. Sine, Palmer Taylor, and J. Andrew McCammon

Ligand-Induced Conformational Change in the 7 Nicotinic Receptor Ligand Binding Domain
Biophys. J. 2005 88: 2564-2576; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.053934. [Abstract] [Full Text] [PDF]  

Xiao Xian Li, Bridgette Davis, Valsala Haridas, Jordan U. Gutterman, and Marco Colombini

Proapoptotic Triterpene Electrophiles (Avicins) Form Channels in Membranes: Cholesterol Dependence
Biophys. J. 2005 88: 2577-2584; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.049403. [Abstract] [Full Text] [PDF]  

Bhavna Tanna, William Welch, Luc Ruest, John L. Sutko, and Alan J. Williams

Voltage-Sensitive Equilibrium between Two States within a Ryanoid-Modified Conductance State of the Ryanodine Receptor Channel
Biophys. J. 2005 88: 2585-2596; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.048587. [Abstract] [Full Text] [PDF]  

Henry Sackin, Mikheil Nanazashvili, Lawrence G. Palmer, M. Krambis, and D. E. Walters

Structural Locus of the pH Gate in the Kir1.1 Inward Rectifier Channel
Biophys. J. 2005 88: 2597-2606; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.051474. [Abstract] [Full Text] [PDF]  

Matjaz Stenovec, Igor Poberaj, Marko Kreft, and Robert Zorec

Concentration-Dependent Staining of Lactotroph Vesicles by FM 4-64
Biophys. J. 2005 88: 2607-2613; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.054098. [Abstract] [Full Text] [PDF]  

Evgeny Pavlov, Eleonora Zakharian, Christopher Bladen, Catherine T. M. Diao, Chelsey Grimbly, Rosetta N. Reusch, and Robert J. French

A Large, Voltage-Dependent Channel, Isolated from Mitochondria by Water-Free Chloroform Extraction
Biophys. J. 2005 88: 2614-2625; Published ahead of print on February 4, 2005 as doi:10.1529/biophysj.104.057281. [Abstract] [Full Text] [PDF]  

MEMBRANES:

Norbert Kucerka, Yufeng Liu, Nanjun Chu, Horia I. Petrache, Stephanie Tristram-Nagle, and John F. Nagle

Structure of Fully Hydrated Fluid Phase DMPC and DLPC Lipid Bilayers Using X-Ray Scattering from Oriented Multilamellar Arrays and from Unilamellar Vesicles
Biophys. J. 2005 88: 2626-2637; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.056606. [Abstract] [Full Text] [PDF]  

Stefan Malcharek, Andreas Hinz, Lutz Hilterhaus, and Hans-Joachim Galla

Multilayer Structures in Lipid Monolayer Films Containing Surfactant Protein C: Effects of Cholesterol and POPE
Biophys. J. 2005 88: 2638-2649; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.050823. [Abstract] [Full Text] [PDF]  

I. G. Tremmel, E. Weis, and G. D. Farquhar

The Influence of Protein-Protein Interactions on the Organization of Proteins within Thylakoid Membranes
Biophys. J. 2005 88: 2650-2660; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.045666. [Abstract] [Full Text] [PDF]  

Bohdana Térová, Robert Heczko, and J. Peter Slotte

On the Importance of the Phosphocholine Methyl Groups for Sphingomyelin/Cholesterol Interactions in Membranes: A Study with Ceramide Phosphoethanolamine
Biophys. J. 2005 88: 2661-2669; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.058149. [Abstract] [Full Text] [PDF]  

Barbara Malewicz, Jacob T. Valiyaveettil, Kochurani Jacob, Hoe-Sup Byun, Peter Mattjus, Wolfgang J. Baumann, Robert Bittman, and Rhoderick E. Brown

The 3-Hydroxy Group and 4,5-trans Double Bond of Sphingomyelin Are Essential for Modulation of Galactosylceramide Transmembrane Asymmetry
Biophys. J. 2005 88: 2670-2680; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.057059. [Abstract] [Full Text] [PDF]  

Michael L. Jennings

Evidence for a Second Binding/Transport Site for Chloride in Erythrocyte Anion Transporter AE1 Modified at Glutamate 681
Biophys. J. 2005 88: 2681-2691; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.056812. [Abstract] [Full Text] [PDF]  

Lauren B. Jensen, Nancy K. Burgess, Denise D. Gonda, Emily Spencer, Heather A. Wilson-Ashworth, Erin Driscoll, Mai P. Vu, Jeremy L. Fairbourn, Allan M. Judd, and John D. Bell

Mechanisms Governing the Level of Susceptibility of Erythrocyte Membranes to Secretory Phospholipase A₂
Biophys. J. 2005 88: 2692-2705; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.056457. [Abstract] [Full Text] [PDF]  

Ernesto E. Ambroggio, Dennis H. Kim, Frances Separovic, Colin J. Barrow, Kevin J. Barnham, Luis A. Bagatolli, and Gerardo D. Fidelio

Surface Behavior and Lipid Interaction of Alzheimer ß-Amyloid Peptide 1–42: A Membrane-Disrupting Peptide
Biophys. J. 2005 88: 2706-2713; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.055582. [Abstract] [Full Text] [PDF]  

Damien Cuvelier, Imre Derényi, Patricia Bassereau, and Pierre Nassoy

Coalescence of Membrane Tethers: Experiments, Theory, and Applications
Biophys. J. 2005 88: 2714-2726; Published ahead of print on February 4, 2005 as doi:10.1529/biophysj.104.056473. [Abstract] [Full Text] [PDF]  

MUSCLE AND CONTRACTILITY:

Toshiro Oda, Keiichi Namba, and Yuichiro Maéda

Position and Orientation of Phalloidin in F-Actin Determined by X-Ray Fiber Diffraction Analysis
Biophys. J. 2005 88: 2727-2736; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.047753. [Abstract] [Full Text] [PDF]  

NUCLEIC ACIDS:

J. A. Abels, F. Moreno-Herrero, T. van der Heijden, C. Dekker, and N. H. Dekker

Single-Molecule Measurements of the Persistence Length of Double-Stranded RNA
Biophys. J. 2005 88: 2737-2744; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.052811. [Abstract] [Full Text] [PDF]  

Danfeng Yao, Junyoung Kim, Fang Yu, Peter E. Nielsen, Eva-Kathrin Sinner, and Wolfgang Knoll

Surface Density Dependence of PCR Amplicon Hybridization on PNA/DNA Probe Layers
Biophys. J. 2005 88: 2745-2751; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.051656. [Abstract] [Full Text] [PDF]  

J. D. Weeks, J. B. Lucks, Y. Kafri, C. Danilowicz, D. R. Nelson, and M. Prentiss

Pause Point Spectra in DNA Constant-Force Unzipping
Biophys. J. 2005 88: 2752-2765; Published ahead of print on February 4, 2005 as doi:10.1529/biophysj.104.047340. [Abstract] [Full Text] [PDF]  

PHOTOBIOPHYSICS:

Dimitar Angelov, Benedicte Beylot, and Annick Spassky

Origin of the Heterogeneous Distribution of the Yield of Guanyl Radical in UV Laser Photolyzed DNA
Biophys. J. 2005 88: 2766-2778; Published ahead of print on December 21, 2004 as doi:10.1529/biophysj.104.049015. [Abstract] [Full Text] [PDF]  

Goran Zgrablic, Kislon Voïtchovsky, Maik Kindermann, Stefan Haacke, and Majed Chergui

Ultrafast Excited State Dynamics of the Protonated Schiff Base of All-trans Retinal in Solvents
Biophys. J. 2005 88: 2779-2788. [Abstract] [Full Text] [PDF]  

PROTEINS:

Paul E. Richardson, Medha Manchekar, Nassrin Dashti, Martin K. Jones, Anne Beigneux, Stephen G. Young, Stephen C. Harvey, and Jere P. Segrest

Assembly of Lipoprotein Particles Containing Apolipoprotein-B: Structural Model for the Nascent Lipoprotein Particle
Biophys. J. 2005 88: 2789-2800; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.046235. [Abstract] [Full Text] [PDF]  

Wei Zhang, John S. Olson, and George N. Phillips, Jr.

Biophysical and Kinetic Characterization of HemAT, an Aerotaxis Receptor from Bacillus subtilis
Biophys. J. 2005 88: 2801-2814; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.047936. [Abstract] [Full Text] [PDF]  

Alexey Aprelev, Maria A. Rotter, Zipora Etzion, Robert M. Bookchin, Robin W. Briehl, and Frank A. Ferrone

The Effects of Erythrocyte Membranes on the Nucleation of Sickle Hemoglobin
Biophys. J. 2005 88: 2815-2822; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.051086. [Abstract] [Full Text] [PDF]  

Ingemar von Ossowski, Julian T. Eaton, Mirjam Czjzek, Stephen J. Perkins, Torben P. Frandsen, Martin Schülein, Pierre Panine, Bernard Henrissat, and Veronique Receveur-Bréchot

Protein Disorder: Conformational Distribution of the Flexible Linker in a Chimeric Double Cellulase
Biophys. J. 2005 88: 2823-2832; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.050146. [Abstract] [Full Text] [PDF]  

Beining Nie, Jerrod Stutzman, and Aihua Xie

A Vibrational Spectral Maker for Probing the Hydrogen-Bonding Status of Protonated Asp and Glu Residues
Biophys. J. 2005 88: 2833-2847; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.047639. [Abstract] [Full Text] [PDF] [Supplemental File]  

Christian Boudier, Ann Gils, Paul J. Declerck, and Joseph G. Bieth

The Conversion of Active to Latent Plasminogen Activator Inhibitor-1 Is an Energetically Silent Event
Biophys. J. 2005 88: 2848-2854; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.053306. [Abstract] [Full Text] [PDF]  

Karim Snoussi and Bertil Halle

Protein Self-Association Induced by Macromolecular Crowding: A Quantitative Analysis by Magnetic Relaxation Dispersion
Biophys. J. 2005 88: 2855-2866; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.055871. [Abstract] [Full Text] [PDF]  

Suzanne Scarlata

Determination of the Activation Volume of PLCß by Gß-Subunits through the Use of High Hydrostatic Pressure
Biophys. J. 2005 88: 2867-2874; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.055715. [Abstract] [Full Text] [PDF]  

L. Maragliano, M. Falconi, A. Sergi, P. Cioni, S. Castelli, A. Lania, M. E. Stroppolo, G. Strambini, M. Ferrario, and A. Desideri

Experimental and Simulative Dissociation of Dimeric Cu,Zn Superoxide Dismutase Doubly Mutated at the Intersubunit Surface
Biophys. J. 2005 88: 2875-2882; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.057638. [Abstract] [Full Text] [PDF]  

SUPRAMOLECULAR ASSEMBLIES:

Barbara Wawro, Sofia Yu Khaitlina, Agnieszka Galinska-Rakoczy, and Hanna Strzelecka-Golaszewska

Role of Actin DNase-I-Binding Loop in Myosin Subfragment 1-Induced Polymerization of G-actin: Implications for the Mechanism of Polymerization
Biophys. J. 2005 88: 2883-2896; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.049155. [Abstract] [Full Text] [PDF]  

Chun Wu, Hongxing Lei, and Yong Duan

The Role of Phe in the Formation of Well-Ordered Oligomers of Amyloidogenic Hexapeptide (NFGAIL) Observed in Molecular Dynamics Simulations with Explicit Solvent
Biophys. J. 2005 88: 2897-2906; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.055574. [Abstract] [Full Text] [PDF]  

Shobini Jayaraman, Donald L. Gantz, and Olga Gursky

Kinetic Stabilization and Fusion of Apolipoprotein A-2:DMPC Disks: Comparison with apoA-1 and apoC-1
Biophys. J. 2005 88: 2907-2918; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.055921. [Abstract] [Full Text] [PDF]  

SPECTROSCOPY, IMAGING, OTHER TECHNIQUES:

Valeria Levi, QiaoQiao Ruan, and Enrico Gratton

3-D Particle Tracking in a Two-Photon Microscope: Application to the Study of Molecular Dynamics in Cells
Biophys. J. 2005 88: 2919-2928; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.044230. [Abstract] [Full Text] [PDF]  

Jeremy D. Wilson, Chad E. Bigelow, David J. Calkins, and Thomas H. Foster

Light Scattering from Intact Cells Reports Oxidative-Stress-Induced Mitochondrial Swelling
Biophys. J. 2005 88: 2929-2938; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.054528. [Abstract] [Full Text] [PDF]  

Nam Ki Lee, Achillefs N. Kapanidis, You Wang, Xavier Michalet, Jayanta Mukhopadhyay, Richard H. Ebright, and Shimon Weiss

Accurate FRET Measurements within Single Diffusing Biomolecules Using Alternating-Laser Excitation
Biophys. J. 2005 88: 2939-2953; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.054114. [Abstract] [Full Text] [PDF] [Supplemental File]  

A. Arcovito, D. C. Lamb, G. U. Nienhaus, J. L. Hazemann, M. Benfatto, and S. Della Longa

Light-Induced Relaxation of Photolyzed Carbonmonoxy Myoglobin: A Temperature-Dependent X-Ray Absorption Near-Edge Structure (XANES) Study
Biophys. J. 2005 88: 2954-2964; Published ahead of print on January 28, 2005 as doi:10.1529/biophysj.104.054973. [Abstract] [Full Text] [PDF]  

Carine Galli Marxer, Mary L. Kraft, Peter K. Weber, Ian D. Hutcheon, and Steven G. Boxer

Supported Membrane Composition Analysis by Secondary Ion Mass Spectrometry with High Lateral Resolution
Biophys. J. 2005 88: 2965-2975; Published ahead of print on February 4, 2005 as doi:10.1529/biophysj.104.057257. [Abstract] [Full Text] [PDF]  

CELL BIOPHYSICS:

Camilla Oxhamre, Agneta Richter-Dahlfors, Vladimir P. Zhdanov, and Bengt Kasemo

A Minimal Generic Model of Bacteria-Induced Intracellular Ca²⁺ Oscillations in Epithelial Cells
Biophys. J. 2005 88: 2976-2981; Published ahead of print on December 13, 2004 as doi:10.1529/biophysj.104.053173. [Abstract] [Full Text] [PDF]  

Alexandra Zelenskaya, Jacques Boutet de Monvel, Devrim Pesen, Manfred Radmacher, Jan H. Hoh, and Mats Ulfendahl

Evidence for a Highly Elastic Shell-Core Organization of Cochlear Outer Hair Cells by Local Membrane Indentation
Biophys. J. 2005 88: 2982-2993; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.052225. [Abstract] [Full Text] [PDF]  

Benjamin A. Smith, Barbara Tolloczko, James G. Martin, and Peter Grütter

Probing the Viscoelastic Behavior of Cultured Airway Smooth Muscle Cells with Atomic Force Microscopy: Stiffening Induced by Contractile Agonist
Biophys. J. 2005 88: 2994-3007; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.046649. [Abstract] [Full Text] [PDF]  

Sarah R. Dennison, Silvia Dante, Thomas Hauß, Klaus Brandenburg, Frederick Harris, and David A. Phoenix

Investigations into the Membrane Interactions of m-Calpain Domain V
Biophys. J. 2005 88: 3008-3017; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.049957. [Abstract] [Full Text] [PDF]  

Pawel Swietach, Chae-Hun Leem, Kenneth W. Spitzer, and Richard D. Vaughan-Jones

Experimental Generation and Computational Modeling of Intracellular pH Gradients in Cardiac Myocytes
Biophys. J. 2005 88: 3018-3037; Published ahead of print on January 14, 2005 as doi:10.1529/biophysj.104.051391. [Abstract] [Full Text] [PDF]  

ELECTROPHYSIOLOGY:

Vinod Sharma, Robert C. Susil, and Leslie Tung

Paradoxical Loss of Excitation with High Intensity Pulses during Electric Field Stimulation of Single Cardiac Cells
Biophys. J. 2005 88: 3038-3049; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.047142. [Abstract] [Full Text] [PDF]  

Wojciech Grajkowski, Andrzej Kubalski, and Piotr Koprowski

Surface Changes of the Mechanosensitive Channel MscS upon Its Activation, Inactivation, and Closing
Biophys. J. 2005 88: 3050-3059; Published ahead of print on January 21, 2005 as doi:10.1529/biophysj.104.053546. [Abstract] [Full Text] [PDF]  

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