NEW AND NOTABLE:

Tamar Schlick

Engineering Teams Up with Computer-Simulation and Visualization Tools to Probe Biomolecular Mechanisms
Biophys. J. 2003 85: 1-4. [Full Text] [PDF]  

BIOPHYSICAL THEORY AND MODELING:

Gerhard Hummer and Attila Szabo

Kinetics from Nonequilibrium Single-Molecule Pulling Experiments
Biophys. J. 2003 85: 5-15. [Abstract] [Full Text] [PDF]  

Iman Famili and Bernhard O. Palsson

The Convex Basis of the Left Null Space of the Stoichiometric Matrix Leads to the Definition of Metabolically Meaningful Pools
Biophys. J. 2003 85: 16-26. [Abstract] [Full Text] [PDF]  

Dengming Ming, Yifei Kong, Yinghao Wu, and Jianpeng Ma

Simulation of F-Actin Filaments of Several Microns
Biophys. J. 2003 85: 27-35. [Abstract] [Full Text] [PDF]  

Paul Grayson, Emad Tajkhorshid, and Klaus Schulten

Mechanisms of Selectivity in Channels and Enzymes Studied with Interactive Molecular Dynamics
Biophys. J. 2003 85: 36-48. [Abstract] [Full Text] [PDF]  

Feng Dong, M. Vijayakumar, and Huan-Xiang Zhou

Comparison of Calculation and Experiment Implicates Significant Electrostatic Contributions to the Binding Stability of Barnase and Barstar
Biophys. J. 2003 85: 49-60. [Abstract] [Full Text] [PDF]  

Weihua Guo, Sotiria Lampoudi, and Joan-Emma Shea

Posttransition State Desolvation of the Hydrophobic Core of the src-SH3 Protein Domain
Biophys. J. 2003 85: 61-69. [Abstract] [Full Text] [PDF]  

Amado Cordova, Markus Deserno, William M. Gelbart, and Avinoam Ben-Shaul

Osmotic Shock and the Strength of Viral Capsids
Biophys. J. 2003 85: 70-74. [Abstract] [Full Text] [PDF]  

Björn Neu, Samuel O. Sowemimo-Coker, and Herbert J. Meiselman

Cell-Cell Affinity of Senescent Human Erythrocytes
Biophys. J. 2003 85: 75-84. [Abstract] [Full Text] [PDF]  

Yonathan Kozlovsky and Michael M. Kozlov

Membrane Fission: Model for Intermediate Structures
Biophys. J. 2003 85: 85-96. [Abstract] [Full Text] [PDF]  

David Bostick and Max L. Berkowitz

The Implementation of Slab Geometry for Membrane-Channel Molecular Dynamics Simulations
Biophys. J. 2003 85: 97-107. [Abstract] [Full Text] [PDF]  

John A. Schellman

Protein Stability in Mixed Solvents: A Balance of Contact Interaction and Excluded Volume
Biophys. J. 2003 85: 108-125. [Abstract] [Full Text] [PDF]  

Pål O. Westermark and Anders Lansner

A Model of Phosphofructokinase and Glycolytic Oscillations in the Pancreatic ß-cell
Biophys. J. 2003 85: 126-139. [Abstract] [Full Text] [PDF]  

Mino Yang, Ana Damjanovic, Harsha M. Vaswani, and Graham R. Fleming

Energy Transfer in Photosystem I of Cyanobacteria Synechococcus elongatus: Model Study with Structure-Based Semi-Empirical Hamiltonian and Experimental Spectral Density
Biophys. J. 2003 85: 140-158. [Abstract] [Full Text] [PDF]  

Federico Fogolari, Alessandro Brigo, and Henriette Molinari

Protocol for MM/PBSA Molecular Dynamics Simulations of Proteins
Biophys. J. 2003 85: 159-166. [Abstract] [Full Text] [PDF]  

Andreas Hanke and Ralf Metzler

Entropy Loss in Long-Distance DNA Looping
Biophys. J. 2003 85: 167-173. [Abstract] [Full Text] [PDF]  

David C. Sullivan, Tiba Aynechi, Vincent A. Voelz, and Irwin D. Kuntz

Information Content of Molecular Structures
Biophys. J. 2003 85: 174-190. [Abstract] [Full Text] [PDF]  

Andrej Vilfan and Thomas Duke

Two Adaptation Processes in Auditory Hair Cells Together Can Provide an Active Amplifier
Biophys. J. 2003 85: 191-203. [Abstract] [Full Text] [PDF]  

Sidney Lees

Mineralization of Type I Collagen
Biophys. J. 2003 85: 204-207. [Abstract] [Full Text] [PDF]  

Chenghai Sun, Cristiano Migliorini, and Lance L. Munn

Red Blood Cells Initiate Leukocyte Rolling in Postcapillary Expansions: A Lattice Boltzmann Analysis
Biophys. J. 2003 85: 208-222. [Abstract] [Full Text] [PDF]  

C. E. Morris, J. A. Wang, and V. S. Markin

The Invagination of Excess Surface Area by Shrinking Neurons
Biophys. J. 2003 85: 223-235. [Abstract] [Full Text] [PDF]  

Fangqiang Zhu and Klaus Schulten

Water and Proton Conduction through Carbon Nanotubes as Models for Biological Channels
Biophys. J. 2003 85: 236-244. [Abstract] [Full Text] [PDF]  

CHANNELS, RECEPTORS, AND TRANSPORTERS:

Gustavo Brum, Nazira Piriz, Rafael DeArmas, Eduardo Rios, Michael Stern, and Gonzalo Pizarro

Differential Effects of Voltage-Dependent Inactivation and Local Anesthetics on Kinetic Phases of Ca²⁺ Release in Frog Skeletal Muscle
Biophys. J. 2003 85: 245-254. [Abstract] [Full Text] [PDF]  

Víctor A. Lórenz-Fonfría, Joaquim Villaverde, Véronique Trézéguet, Guy J.-M. Lauquin, Gérard Brandolin, and Esteve Padrós

Structural and Functional Implications of the Instability of the ADP/ATP Transporter Purified from Mitochondria as Revealed by FTIR Spectroscopy
Biophys. J. 2003 85: 255-266. [Abstract] [Full Text] [PDF]  

Takashi Okazaki, Machiko Sakoh, Yasuo Nagaoka, and Koji Asami

Ion Channels of Alamethicin Dimer N-Terminally Linked by Disulfide Bond
Biophys. J. 2003 85: 267-273. [Abstract] [Full Text] [PDF]  

Igor Dzhura and Alan Neely

Differential Modulation of Cardiac Ca²⁺ Channel Gating by ß-Subunits
Biophys. J. 2003 85: 274-289. [Abstract] [Full Text] [PDF]  

Huiping Tu, Elena Nosyreva, Tomoya Miyakawa, Zhengnan Wang, Akiko Mizushima, Masamitsu Iino, and Ilya Bezprozvanny

Functional and Biochemical Analysis of the Type 1 Inositol (1,4,5)-Trisphosphate Receptor Calcium Sensor
Biophys. J. 2003 85: 290-299. [Abstract] [Full Text] [PDF]  

Noga Alagem, Semen Yesylevskyy, and Eitan Reuveny

The Pore Helix Is Involved in Stabilizing the Open State of Inwardly Rectifying K⁺ Channels
Biophys. J. 2003 85: 300-312. [Abstract] [Full Text] [PDF] [Tables]  

László Csanády and Vera Adam-Vizi

Ca²⁺- and Voltage-Dependent Gating of Ca²⁺- and ATP-Sensitive Cationic Channels in Brain Capillary Endothelium
Biophys. J. 2003 85: 313-327. [Abstract] [Full Text] [PDF]  

MEMBRANES:

Isabelle Marcotte, Erick J. Dufourc, Marise Ouellet, and Michèle Auger

Interaction of the Neuropeptide Met-Enkephalin with Zwitterionic and Negatively Charged Bicelles as Viewed by ³¹P and ²H Solid-State NMR
Biophys. J. 2003 85: 328-339. [Abstract] [Full Text] [PDF]  

Carol R. Flach, Peng Cai, Darline Dieudonné, Joseph W. Brauner, Kevin M. W. Keough, June Stewart, and Richard Mendelsohn

Location of Structural Transitions in an Isotopically Labeled Lung Surfactant SP-B Peptide by IRRAS
Biophys. J. 2003 85: 340-349. [Abstract] [Full Text] [PDF]  

Thomas Kaasgaard, Chad Leidy, John H. Crowe, Ole G. Mouritsen, and Kent Jørgensen

Temperature-Controlled Structure and Kinetics of Ripple Phases in One- and Two-Component Supported Lipid Bilayers
Biophys. J. 2003 85: 350-360. [Abstract] [Full Text] [PDF]  

Burkhard Bechinger and Martin Weik

Deuterium Solid-State NMR Investigations of Exchange Labeled Oriented Purple Membranes at Different Hydration Levels
Biophys. J. 2003 85: 361-369. [Abstract] [Full Text] [PDF]  

Leticia Gómez-Viquez, Guadalupe Guerrero-Serna, Ubaldo García, and Agustín Guerrero-Hernández

SERCA Pump Optimizes Ca²⁺ Release by a Mechanism Independent of Store Filling in Smooth Muscle Cells
Biophys. J. 2003 85: 370-380. [Abstract] [Full Text] [PDF]  

Guy Hed and S. A. Safran

Initiation and Dynamics of Hemifusion in Lipid Bilayers
Biophys. J. 2003 85: 381-389. [Abstract] [Full Text] [PDF]  

MUSCLE AND CONTRACTILITY:

Julien S. Davis and Neal D. Epstein

Kinetic Effects of Fiber Type on the Two Subcomponents of the Huxley-Simmons Phase 2 in Muscle
Biophys. J. 2003 85: 390-401. [Abstract] [Full Text] [PDF]  

NUCLEIC ACIDS:

Mikio Kato, Shingo Hokabe, Shuji Itakura, Shinsei Minoshima, Yuri L. Lyubchenko, Theodor D. Gurkov, Hiroshi Okawara, Kuniaki Nagayama, and Nobuyoshi Shimizu

Interarm Interaction of DNA Cruciform Forming at a Short Inverted Repeat Sequence
Biophys. J. 2003 85: 402-408. [Abstract] [Full Text] [PDF]  

Yongjun Lu, Brock D. Weers, and Nancy C. Stellwagen

Analysis of the Intrinsic Bend in the M13 Origin of Replication by Atomic Force Microscopy
Biophys. J. 2003 85: 409-415. [Abstract] [Full Text] [PDF]  

Gilberto Villescas-Diaz and Martin Zacharias

Sequence Context Dependence of Tandem Guanine:Adenine Mismatch Conformations in RNA: A Continuum Solvent Analysis
Biophys. J. 2003 85: 416-425. [Abstract] [Full Text] [PDF]  

PHOTOBIOPHYSICS:

Colin D. Heyes and Mostafa A. El-Sayed

Proton Transfer Reactions in Native and Deionized Bacteriorhodopsin upon Delipidation and Monomerization
Biophys. J. 2003 85: 426-434. [Abstract] [Full Text] [PDF]  

Vladimir P. Shinkarev

Oxygen Evolution in Photosynthesis: Simple Analytical Solution for the Kok Model
Biophys. J. 2003 85: 435-441. [Abstract] [Full Text] [PDF]  

Wendel Wohlleben, Tiago Buckup, Jennifer L. Herek, Richard J. Cogdell, and Marcus Motzkus

Multichannel Carotenoid Deactivation in Photosynthetic Light Harvesting as Identified by an Evolutionary Target Analysis
Biophys. J. 2003 85: 442-450. [Abstract] [Full Text] [PDF] [Figure]  

Marc T. Facciotti, Vincent S. Cheung, Doris Nguyen, Shahab Rouhani, and Robert M. Glaeser

Crystal Structure of the Bromide-Bound D85S Mutant of Bacteriorhodopsin: Principles of Ion Pumping
Biophys. J. 2003 85: 451-458. [Abstract] [Full Text] [PDF]  

PROTEINS:

Thiagarajan Srimathi, Thallampuranam Krishnaswamy S. Kumar, Karuppanan Muthusamy Kathir, Ya-Hui Chi, Sampath Srisailam, Wann-Yin Lin, Ing-Ming Chiu, and Chin Yu

Structurally Homologous All ß-Barrel Proteins Adopt Different Mechanisms of Folding
Biophys. J. 2003 85: 459-472. [Abstract] [Full Text] [PDF]  

K. S. Satheeshkumar and R. Jayakumar

Conformational Polymorphism of the Amyloidogenic Peptide Homologous to Residues 113–127 of the Prion Protein
Biophys. J. 2003 85: 473-483. [Abstract] [Full Text] [PDF]  

Hiroshi Sekiguchi, Hideo Arakawa, Hideki Taguchi, Takeshi Ito, Ryohei Kokawa, and Atsushi Ikai

Specific Interaction between GroEL and Denatured Protein Measured by Compression-Free Force Spectroscopy
Biophys. J. 2003 85: 484-490. [Abstract] [Full Text] [PDF]  

Marjaana Nousiainen, Peter J. Derrick, Daniel Lafitte, and Pirjo Vainiotalo

Relative Affinity Constants by Electrospray Ionization and Fourier Transform Ion Cyclotron Resonance Mass Spectrometry: Calmodulin Binding to Peptide Analogs of Myosin Light Chain Kinase
Biophys. J. 2003 85: 491-500. [Abstract] [Full Text] [PDF]  

Stefan Verheyden, Alain Sillen, Ann Gils, Paul J. Declerck, and Yves Engelborghs

Tryptophan Properties in Fluorescence and Functional Stability of Plasminogen Activator Inhibitor 1
Biophys. J. 2003 85: 501-510. [Abstract] [Full Text] [PDF]  

Lizhong He, Sabine André, Hans-Christian Siebert, Heike Helmholz, Bernd Niemeyer, and Hans-Joachim Gabius

Detection of Ligand- and Solvent-Induced Shape Alterations of Cell-Growth-Regulatory Human Lectin Galectin-1 in Solution by Small Angle Neutron and X-Ray Scattering
Biophys. J. 2003 85: 511-524. [Abstract] [Full Text] [PDF]  

SUPRAMOLECULAR ASSEMBLIES:

Catherine Sukow and David J. DeRosier

Order, Disorder, and Perturbations in Actin-Aldolase Rafts
Biophys. J. 2003 85: 525-536. [Abstract] [Full Text] [PDF]  

S. Y. Fung, C. Keyes, J. Duhamel, and P. Chen

Concentration Effect on the Aggregation of a Self-Assembling Oligopeptide
Biophys. J. 2003 85: 537-548. [Abstract] [Full Text] [PDF]  

SPECTROSCOPY, IMAGING, OTHER TECHNIQUES:

S. Della Longa, A. Arcovito, M. Benfatto, A. Congiu-Castellano, M. Girasole, J. L. Hazemann, and A. Lo Bosco

Redox-Induced Structural Dynamics of Fe-Heme Ligand in Myoglobin by X-Ray Absorption Spectroscopy
Biophys. J. 2003 85: 549-558. [Abstract] [Full Text] [PDF]  

Horst Wallrabe, Masilamani Elangovan, Almut Burchard, Ammasi Periasamy, and Margarida Barroso

Confocal FRET Microscopy to Measure Clustering of Ligand-Receptor Complexes in Endocytic Membranes
Biophys. J. 2003 85: 559-571. [Abstract] [Full Text] [PDF]  

P. J. Caspers, G. W. Lucassen, and G. J. Puppels

Combined In Vivo Confocal Raman Spectroscopy and Confocal Microscopy of Human Skin
Biophys. J. 2003 85: 572-580. [Abstract] [Full Text] [PDF]  

Mark Stroh, Warren R. Zipfel, Rebecca M. Williams, Watt W. Webb, and W. Mark Saltzman

Diffusion of Nerve Growth Factor in Rat Striatum as Determined by Multiphoton Microscopy
Biophys. J. 2003 85: 581-588. [Abstract] [Full Text] [PDF]  

Jakub Wlodarczyk and Borys Kierdaszuk

Interpretation of Fluorescence Decays using a Power-like Model
Biophys. J. 2003 85: 589-598. [Abstract] [Full Text] [PDF]  

Michael G. Erickson, Daniel L. Moon, and David T. Yue

DsRed as a Potential FRET Partner with CFP and GFP
Biophys. J. 2003 85: 599-611. [Abstract] [Full Text] [PDF]  

CELL BIOPHYSICS:

Christof Francke, Pieter W. Postma, Hans V. Westerhoff, Joke G. Blom, and Mark A. Peletier

Why the Phosphotransferase System of Escherichia coli Escapes Diffusion Limitation
Biophys. J. 2003 85: 612-622. [Abstract] [Full Text] [PDF]  

Joseph N. Fass and David J. Odde

Tensile Force-Dependent Neurite Elicitation via Anti-ß1 Integrin Antibody-Coated Magnetic Beads
Biophys. J. 2003 85: 623-636. [Abstract] [Full Text] [PDF]  

Michael L. Smith, David S. Long, Edward R. Damiano, and Klaus Ley

Near-Wall µ-PIV Reveals a Hydrodynamically Relevant Endothelial Surface Layer in Venules In Vivo
Biophys. J. 2003 85: 637-645. [Abstract] [Full Text] [PDF]  

Stefanie Goennenwein, Motomu Tanaka, Bin Hu, Luis Moroder, and Erich Sackmann

Functional Incorporation of Integrins into Solid Supported Membranes on Ultrathin Films of Cellulose: Impact on Adhesion
Biophys. J. 2003 85: 646-655. [Abstract] [Full Text] [PDF]  

BIOENERGETICS:

Audrey S. Pham and Gregory D. Reinhart

Quantification of Allosteric Influence of Escherichia coli Phosphofructokinase by Frequency Domain Fluorescence
Biophys. J. 2003 85: 656-666. [Abstract] [Full Text] [PDF]  

CORRECTIONS:

Correction
Biophys. J. 2003 85: 667-672. [Full Text] [PDF]  

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