Biophysical Journal -- Table of Contents (90 [12])

BIOPHYSICAL THEORY AND MODELING:

A. Schug and W. Wenzel: An Evolutionary Strategy for All-Atom Folding of the 60-Amino-Acid Bacterial Ribosomal Protein L20
Biophys. J. 2006 90: 4273-4280; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.070409. [Abstract] [Full Text] [PDF]

Jonathan L. Eide, Arup K. Chakraborty, and George F. Oster: Simple Models for Extracting Mechanical Work from the ATP Hydrolysis Cycle
Biophys. J. 2006 90: 4281-4294; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.073320. [Abstract] [Full Text] [PDF] [Supplemental]

Le Yang, David Sept, and A. E. Carlsson: Energetics and Dynamics of Constrained Actin Filament Bundling
Biophys. J. 2006 90: 4295-4304; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.076968. [Abstract] [Full Text] [PDF] [Supplemental]

Nikolay Korolev, Alexander P. Lyubartsev, and Lars Nordenskiöld: Computer Modeling Demonstrates that Electrostatic Attraction of Nucleosomal DNA is Mediated by Histone Tails
Biophys. J. 2006 90: 4305-4316; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.080226. [Abstract] [Full Text] [PDF]

Monica L. Skoge, Robert G. Endres, and Ned S. Wingreen: Receptor-Receptor Coupling in Bacterial Chemotaxis: Evidence for Strongly Coupled Clusters
Biophys. J. 2006 90: 4317-4326; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.079905. [Abstract] [Full Text] [PDF]

Wenjun Zheng and Bernard R. Brooks: Modeling Protein Conformational Changes by Iterative Fitting of Distance Constraints Using Reoriented Normal Modes
Biophys. J. 2006 90: 4327-4336; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.076836. [Abstract] [Full Text] [PDF] [Supplemental]

Cristina S. Pereira, David Kony, Riccardo Baron, Martin Müller, Wilfred F. van Gunsteren, and Philippe H. Hünenberger: Conformational and Dynamical Properties of Disaccharides in Water: a Molecular Dynamics Study
Biophys. J. 2006 90: 4337-4344; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.106.081539. [Abstract] [Full Text] [PDF]

Andrea Catte, James C. Patterson, Martin K. Jones, W. Gray Jerome, Denys Bashtovyy, Zhengchang Su, Feifei Gu, Jianguo Chen, Marcela P. Aliste, Stephen C. Harvey, Ling Li, Gilbert Weinstein, and Jere P. Segrest: Novel Changes in Discoidal High Density Lipoprotein Morphology: A Molecular Dynamics Study
Biophys. J. 2006 90: 4345-4360; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.071456. [Abstract] [Full Text] [PDF] [Supplemental]

Attila Csikász-Nagy, Dorjsuren Battogtokh, Katherine C. Chen, Béla Novák, and John J. Tyson: Analysis of a Generic Model of Eukaryotic Cell-Cycle Regulation
Biophys. J. 2006 90: 4361-4379; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.106.081240. [Abstract] [Full Text] [PDF] [Supplemental]

Dehong Zeng, Aldo Ferrari, Jens Ulmer, Alexey Veligodskiy, Peter Fischer, Joachim Spatz, Yiannis Ventikos, Dimos Poulikakos, and Ruth Kroschewski: Three-Dimensional Modeling of Mechanical Forces in the Extracellular Matrix during Epithelial Lumen Formation
Biophys. J. 2006 90: 4380-4391; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.073494. [Abstract] [Full Text] [PDF]

CHANNELS, RECEPTORS, AND ELECTRICAL SIGNALING:

P. Århem, G. Klement, and C. Blomberg: Channel Density Regulation of Firing Patterns in a Cortical Neuron Model
Biophys. J. 2006 90: 4392-4404; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.077032. [Abstract] [Full Text] [PDF]

Nesar Akanda and Fredrik Elinder: Biophysical Properties of the Apoptosis-Inducing Plasma Membrane Voltage-Dependent Anion Channel
Biophys. J. 2006 90: 4405-4417; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.080028. [Abstract] [Full Text] [PDF]

Yutaka Hirata, Marco Brotto, Noah Weisleder, Yi Chu, Peihui Lin, Xiaoli Zhao, Angela Thornton, Shinji Komazaki, Hiroshi Takeshima, Jianjie Ma, and Zui Pan: Uncoupling Store-Operated Ca²⁺ Entry and Altered Ca²⁺ Release from Sarcoplasmic Reticulum through Silencing of Junctophilin Genes
Biophys. J. 2006 90: 4418-4427; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.076570. [Abstract] [Full Text] [PDF]

MEMBRANES:

Sarah L. Veatch, Klaus Gawrisch, and Sarah L. Keller: Closed-Loop Miscibility Gap and Quantitative Tie-Lines in Ternary Membranes Containing Diphytanoyl PC
Biophys. J. 2006 90: 4428-4436; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.080283. [Abstract] [Full Text] [PDF]

M. Fidorra, L. Duelund, C. Leidy, A. C. Simonsen, and L.A. Bagatolli: Absence of Fluid-Ordered/Fluid-Disordered Phase Coexistence in Ceramide/POPC Mixtures Containing Cholesterol
Biophys. J. 2006 90: 4437-4451; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.077107. [Abstract] [Full Text] [PDF]

Musti J. Swamy, Laura Ciani, Mingtao Ge, Andrew K. Smith, David Holowka, Barbara Baird, and Jack H. Freed: Coexisting Domains in the Plasma Membranes of Live Cells Characterized by Spin-Label ESR Spectroscopy
Biophys. J. 2006 90: 4452-4465; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.070839. [Abstract] [Full Text] [PDF] [Supplemental]

Craig D. Blanchette, Wan-Chen Lin, Timothy V. Ratto, and Marjorie L. Longo: Galactosylceramide Domain Microstructure: Impact of Cholesterol and Nucleation/Growth Conditions
Biophys. J. 2006 90: 4466-4478; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.072744. [Abstract] [Full Text] [PDF]

Alekos Tsamaloukas, Halina Szadkowska, and Heiko Heerklotz: Thermodynamic Comparison of the Interactions of Cholesterol with Unsaturated Phospholipid and Sphingomyelins
Biophys. J. 2006 90: 4479-4487; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.080127. [Abstract] [Full Text] [PDF]

Karen Sabatini, Juha-Pekka Mattila, Francesco M. Megli, and Paavo K. J. Kinnunen: Characterization of Two Oxidatively Modified Phospholipids in Mixed Monolayers with DPPC
Biophys. J. 2006 90: 4488-4499; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.080176. [Abstract] [Full Text] [PDF]

Salvatore Chiantia, Nicoletta Kahya, Jonas Ries, and Petra Schwille: Effects of Ceramide on Liquid-Ordered Domains Investigated by Simultaneous AFM and FCS
Biophys. J. 2006 90: 4500-4508; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.106.081026. [Abstract] [Full Text] [PDF]

Sandro Keller, Heiko Heerklotz, Nadin Jahnke, and Alfred Blume: Thermodynamics of Lipid Membrane Solubilization by Sodium Dodecyl Sulfate
Biophys. J. 2006 90: 4509-4521; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.077867. [Abstract] [Full Text] [PDF] [Supplemental]

NUCLEIC ACIDS:

Yan Zeng and Giovanni Zocchi: Mismatches and Bubbles in DNA
Biophys. J. 2006 90: 4522-4529; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.069591. [Abstract] [Full Text] [PDF]

Se Bok Jang, Li-Wei Hung, Mi Suk Jeong, Elizabeth L. Holbrook, Xiaoying Chen, Douglas H. Turner, and Stephen R. Holbrook: The Crystal Structure at 1.5 Å Resolution of an RNA Octamer Duplex Containing Tandem G·U Basepairs
Biophys. J. 2006 90: 4530-4537; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.106.081018. [Abstract] [Full Text] [PDF]

J. T. Mannion, C. H. Reccius, J. D. Cross, and H. G. Craighead: Conformational Analysis of Single DNA Molecules Undergoing Entropically Induced Motion in Nanochannels
Biophys. J. 2006 90: 4538-4545. [Abstract] [Full Text] [PDF] [Supplemental]

William B. Sherman and Nadrian C. Seeman: Design of Minimally Strained Nucleic Acid Nanotubes
Biophys. J. 2006 90: 4546-4557; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.080390. [Abstract] [Full Text] [PDF] [Supplemental]

PROTEINS:

Kelly L. Damm and Heather A. Carlson: Gaussian-Weighted RMSD Superposition of Proteins: A Structural Comparison for Flexible Proteins and Predicted Protein Structures
Biophys. J. 2006 90: 4558-4573; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.066654. [Abstract] [Full Text] [PDF] [Supplemental]

Alexander J. Marchut and Carol K. Hall: Side-Chain Interactions Determine Amyloid Formation by Model Polyglutamine Peptides in Molecular Dynamics Simulations
Biophys. J. 2006 90: 4574-4584; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.079269. [Abstract] [Full Text] [PDF]

Mauro Manno, Emanuela Fabiola Craparo, Vincenzo Martorana, Donatella Bulone, and Pier Luigi San Biagio: Kinetics of Insulin Aggregation: Disentanglement of Amyloid Fibrillation from Large-Size Cluster Formation
Biophys. J. 2006 90: 4585-4591; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.077636. [Abstract] [Full Text] [PDF]

Estefanía Hurtado-Gómez, Gregorio Fernández-Ballester, Harald Nothaft, Javier Gómez, Fritz Titgemeyer, and José Luis Neira: Biophysical Characterization of the Enzyme I of the Streptomyces coelicolor Phosphoenolpyruvate:Sugar Phosphotransferase System
Biophys. J. 2006 90: 4592-4604; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.076935. [Abstract] [Full Text] [PDF]

Oana Coban, Don C. Lamb, Evgeny Zaychikov, Hermann Heumann, and G. Ulrich Nienhaus: Conformational Heterogeneity in RNA Polymerase Observed by Single-Pair FRET Microscopy
Biophys. J. 2006 90: 4605-4617; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.078840. [Abstract] [Full Text] [PDF]

SUPRAMOLECULAR ASSEMBLIES:

Anant K. Paravastu, Aneta T. Petkova, and Robert Tycko: Polymorphic Fibril Formation by Residues 10–40 of the Alzheimer's ß-Amyloid Peptide
Biophys. J. 2006 90: 4618-4629; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.076927. [Abstract] [Full Text] [PDF]

Camilo Guáqueta, Lori K. Sanders, Gerard C. L. Wong, and Erik Luijten: The Effect of Salt on Self-Assembled Actin-Lysozyme Complexes
Biophys. J. 2006 90: 4630-4638; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.078253. [Abstract] [Full Text] [PDF]

Avner Priel, Arnolt J. Ramos, Jack A. Tuszynski, and Horacio F. Cantiello: A Biopolymer Transistor: Electrical Amplification by Microtubules
Biophys. J. 2006 90: 4639-4643; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.078915. [Abstract] [Full Text] [PDF]

SPECTROSCOPY, IMAGING, OTHER TECHNIQUES:

Hugo Sanabria, John H. Miller, Jr., Andreas Mershin, Richard F. Luduena, Alexandre A. Kolomenski, Hans A. Schuessler, and Dimitri V. Nanopoulos: Impedance Spectroscopy of ${alpha}$ -ß Tubulin Heterodimer Suspensions
Biophys. J. 2006 90: 4644-4650. [Abstract] [Full Text] [PDF]

Patrick H. Brown and Peter Schuck: Macromolecular Size-and-Shape Distributions by Sedimentation Velocity Analytical Ultracentrifugation
Biophys. J. 2006 90: 4651-4661; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.106.081372. [Abstract] [Full Text] [PDF]

Thomas P. Burghardt, Jon E. Charlesworth, Miriam F. Halstead, James E. Tarara, and Katalin Ajtai: In Situ Fluorescent Protein Imaging with Metal Film-Enhanced Total Internal Reflection Microscopy
Biophys. J. 2006 90: 4662-4671; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.079442. [Abstract] [Full Text] [PDF]

Casey H. Londergan, Jianping Wang, Paul H. Axelsen, and Robin M. Hochstrasser: Two-Dimensional Infrared Spectroscopy Displays Signatures of Structural Ordering in Peptide Aggregates
Biophys. J. 2006 90: 4672-4685; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.075812. [Abstract] [Full Text] [PDF]

Todd Sulchek, Raymond W. Friddle, and Aleksandr Noy: Strength of Multiple Parallel Biological Bonds
Biophys. J. 2006 90: 4686-4691; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.080291. [Abstract] [Full Text] [PDF]

Elizabeth Rhoades, Trudy F. Ramlall, Watt W. Webb, and David Eliezer: Quantification of ${alpha}$ -Synuclein Binding to Lipid Vesicles Using Fluorescence Correlation Spectroscopy
Biophys. J. 2006 90: 4692-4700; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.079251. [Abstract] [Full Text] [PDF]

CELL BIOPHYSICS:

Ralf Kemkemer, Simon Jungbauer, Dieter Kaufmann, and Hans Gruler: Cell Orientation by a Microgrooved Substrate Can Be Predicted by Automatic Control Theory
Biophys. J. 2006 90: 4701-4711; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.067967. [Abstract] [Full Text] [PDF]

Brian R. Daniels, Byron C. Masi, and Denis Wirtz: Probing Single-Cell Micromechanics In Vivo: The Microrheology of C. elegans Developing Embryos
Biophys. J. 2006 90: 4712-4719; Published ahead of print on March 31, 2006 as doi:10.1529/biophysj.105.080606. [Abstract] [Full Text] [PDF]

M. Kiesel, R. Reuss, J. Endter, D. Zimmermann, H. Zimmermann, R. Shirakashi, E. Bamberg, U. Zimmermann, and V. L. Sukhorukov: Swelling-Activated Pathways in Human T-Lymphocytes Studied by Cell Volumetry and Electrorotation
Biophys. J. 2006 90: 4720-4729; Published ahead of print on March 24, 2006 as doi:10.1529/biophysj.105.078725. [Abstract] [Full Text] [PDF]