2002 year
- Single-Particle and Collective Dynamics of Protein Hydration Water: A Molecular Dynamics Study
M. Tarek and D. J. Tobias
Phys. Rev. Lett. 89, 275501 (2002)
- Stretching Single Stranded DNA, a Model Polyelectrolyte
M.-N. Dessinges, B. Maier, Y. Zhang, M. Peliti, D. Bensimon, and V. Croquette
Phys. Rev. Lett. 89, 248102 (2002)
- Lack of Self-Averaging in Neutral Evolution of Proteins
U. Bastolla, M. Porto, H. E. Roman, and M. Vendruscolo
Phys. Rev. Lett. 89, 208101 (2002)
- Evolution of Protein Synthesis in a Lattice Model of Replicators
A. Rosas, C. P. Ferreira, and J. F. Fontanari
Phys. Rev. Lett. 89, 188101 (2002)
- Role of Molecular Size in Ratchet Fractionation
Lotien Richard Huang, Pascal Silberzan, Jonas O. Tegenfeldt, Edward C. Cox, James C. Sturm, Robert H. Austin, and Harold Craighead
Phys. Rev. Lett. 89, 178301 (2002)
- Glassy Dynamics of Side-Chain Ordering in a Simple Model of Protein Folding
E. Kussell and E. I. Shakhnovich
Phys. Rev. Lett. 89, 168101 (2002)
- Unfolding Proteins under External Forces: A Solvable Model under the Self-Consistent Pair Contact Probability Approximation
T. Shen, L. S. Canino, and J. A. McCammon
Phys. Rev. Lett. 89, 068103 (2002)
- Exact Solution of the Muñoz-Eaton Model for Protein Folding
P. Bruscolini and A. Pelizzola
Phys. Rev. Lett. 88, 258101 (2002)
- Specific and Nonspecific Collapse in Protein Folding Funnels
J. Chahine, H. Nymeyer, V. B. P. Leite, N. D. Socci, and J. N. Onuchic
Phys. Rev. Lett. 88, 168101 (2002)
- Synthetic Gene Network for Entraining and Amplifying Cellular Oscillations
J. Hasty, M. Dolnik, V. Rottschäfer, and J. J. Collins
Phys. Rev. Lett. 88, 148101 (2002)
- Role of Protein-Water Hydrogen Bond Dynamics in the Protein Dynamical Transition
M. Tarek and D. J. Tobias
Phys. Rev. Lett. 88, 138101 (2002)
- Global Optimization by Energy Landscape Paving
U. H. E. Hansmann and L. T. Wille
Phys. Rev. Lett. 88, 068105 (2002)
- Language Trees and Zipping
Dario Benedetto, Emanuele Caglioti, and Vittorio Loreto
Phys. Rev. Lett. 88, 048702 (2002)
- Excited-State Lifetimes of Far-Infrared Collective Modes in Proteins
A. Xie, A. F. G. van der Meer, and R. H. Austin
Phys. Rev. Lett. 88, 018102 (2002)
- Motor-Driven Dynamics in Actin-Myosin Networks
L. Le Goff, F. Amblard, and E. M. Furst
Phys. Rev. Lett. 88, 018101 (2002)
- From gene families and genera to incomes and internet file sizes: Why power laws are so common in nature
W. J. Reed and B. D. Hughes
Phys. Rev. E 66, 067103 (2002)
- Range-dependent random graphs and their application to modeling large small-world Proteome datasets
P. Grindrod
Phys. Rev. E 66, 066702 (2002)
- Resealing dynamics of a cell membrane after electroporation
M. Bier, W. Chen, T. R. Gowrishankar, R. D. Astumian, and R. C. Lee
Phys. Rev. E 66, 062905 (2002)
- Surface relaxation in protein crystals
S. Boutet, I. K. Robinson, Z. W. Hu, B. R. Thomas, and A. A. Chernov
Phys. Rev. E 66, 061914 (2002)
- Design of lattice proteins with explicit solvent
G. Salvi, S. Mölbert, and P. De Los Rios
Phys. Rev. E 66, 061911 (2002)
- Intercalation and buckling instability of DNA linker within locked chromatin fiber
Jean-Marc Victor, Eli Ben-Haïm, and A. Lesne
Phys. Rev. E 66, 060901 (2002)
- Intercalation and buckling instability of DNA linker within locked chromatin fiber
J.-M. Victor, E. Ben-Haïm, and A. Lesne
Phys. Rev. E 66, 060901 (2002)
- Infinite-order percolation and giant fluctuations in a protein interaction network
J. Kim, P. L. Krapivsky, B. Kahng, and S. Redner
Phys. Rev. E 66, 055101 (2002)
- Adsorption of a random copolymer at a lipid bilayer membrane
A. V. Ermoshkin, J. Z. Y. Chen, and P.-Y. Lai
Phys. Rev. E 66, 051912 (2002)
- Langevin dynamics of proteins at constant pH
A. M. Walczak and J. M. Antosiewicz
Phys. Rev. E 66, 051911 (2002)
- Physical model for the gating mechanism of ionic channels
C.-M. Ghim and J.-M. Park
Phys. Rev. E 66, 051910 (2002)
- Iron normal mode dynamics in a porphyrin-imidazole model for deoxyheme proteins
B. K. Rai, S. M. Durbin, E. W. Prohofsky, J. Timothy Sage, M. K. Ellison, W. Robert Scheidt, W. Sturhahn, and E. Ercan Alp
Phys. Rev. E 66, 051904 (2002)
- Effects of macromolecular crowding on protein folding and aggregation studied by density functional theory: Dynamics
A. R. Kinjo and S. Takada
Phys. Rev. E 66, 051902 (2002)
- Metastable liquid-liquid phase transition in a single-component system with only one crystal phase and no density anomaly
G. Franzese, G. Malescio, A. Skibinsky, S. V. Buldyrev, and H. E. Stanley
Phys. Rev. E 66, 051206 (2002)
- Structure of best possible strategies for finding ground states
K. H. Hoffmann, A. Franz, and P. Salamon
Phys. Rev. E 66, 046706 (2002)
- Drainage of single Plateau borders: Direct observation of rigid and mobile interfaces
S. A. Koehler, S. Hilgenfeldt, E. R. Weeks, and H. A. Stone
Phys. Rev. E 66, 040601 (2002)
- Effects of macromolecular crowding on protein folding and aggregation studied by density functional theory: Statics
A. R. Kinjo and S. Takada
Phys. Rev. E 66, 031911 (2002)
- Protein design depends on the size of the amino acid alphabet
R. C. Ball and T. M. A. Fink
Phys. Rev. E 66, 031902 (2002)
- Bethe approximation for a hydrophobic-polar random copolymer
M. Pretti
Phys. Rev. E 66, 031803 (2002)
- Comment on "Improvement of the Davydov theory of bioenergy transport in protein molecular systems"
L. Cruzeiro-Hansson
Phys. Rev. E 66, 023901 (2002)
- Protein folding by a quasi-static-like process: A first-order state transition
C.-C. Chang, Y.-C. Su, M.-S. Cheng, and L.-S. Kan
Phys. Rev. E 66, 021903 (2002)
- Evidence for the surface-diffusion mechanism of solution crystallization from molecular-level observations with ferritin
K. Chen and P. G. Vekilov
Phys. Rev. E 66, 021606 (2002)
- Diffusion and directed motion in cellular transport
A. Caspi, R. Granek, and M. Elbaum
Phys. Rev. E 66, 011916 (2002)
- Role of anisotropic interactions in protein crystallization
X. Song
Phys. Rev. E 66, 011909 (2002)
- Configurational entropy and mechanical properties of cross-linked polymer chains: Implications for protein and RNA folding
Dmitrii E. Makarov and Gregory J. Rodin
Phys. Rev. E 66, 011908 (2002)
- Configurational entropy and mechanical properties of cross-linked polymer chains: Implications for protein and RNA folding
D. E. Makarov and G. J. Rodin
Phys. Rev. E 66, 011908 (2002)
- Molecular dynamics simulation of polymer helix formation using rigid-link methods
D. C. Rapaport
Phys. Rev. E 66, 011906 (2002)
- Diffusive dynamics of protein folding studied by molecular dynamics simulations of an off-lattice model
A. Baumketner and Y. Hiwatari
Phys. Rev. E 66, 011905 (2002)
- Small-world view of the amino acids that play a key role in protein folding
M. Vendruscolo, N. V. Dokholyan, E. Paci, and M. Karplus
Phys. Rev. E 65, 061910 (2002)
- Classification of amino acids based on statistical results of known structures and cooperativity of protein folding
H. Chen, X. Zhou, and Z.-C. Ou-Yang
Phys. Rev. E 65, 061907 (2002)
- Thermal diffusion and chemical kinetics in laminar biomaterial due to heating by a free-electron laser
M. S. Hutson, S. A. Hauger, and G. Edwards
Phys. Rev. E 65, 061906 (2002)
- Electrical characterization of gel collected from shark electrosensors
B. R. Brown, J. C. Hutchison, M. E. Hughes, D. R. Kellogg, and R. W. Murray
Phys. Rev. E 65, 061903 (2002)
- Quantum computation in brain microtubules: Decoherence and biological feasibility
S. Hagan, S. R. Hameroff, and J. A. Tuszynski
Phys. Rev. E 65, 061901 (2002)
- Sampling rare events: Statistics of local sequence alignments
A. K. Hartmann
Phys. Rev. E 65, 056102 (2002)
- Vibrational dynamics of myoglobin determined by the phonon-assisted Mössbauer effect
K. Achterhold, C. Keppler, A. Ostermann, U. van Bürck, W. Sturhahn, E. E. Alp, and F. G. Parak
Phys. Rev. E 65, 051916 (2002)
- Stability puzzles in phage lambda
E. Aurell, S. Brown, J. Johanson, and K. Sneppen
Phys. Rev. E 65, 051914 (2002)
- Molecular gyroscopes and biological effects of weak extremely low-frequency magnetic fields
V. N. Binhi and A. V. Savin
Phys. Rev. E 65, 051912 (2002)
- Impact of regulatory proteins on the nonlinear dynamics of DNA
M. V. Sataric and J. A. Tuszynski
Phys. Rev. E 65, 051901 (2002)
- Impact of regulatory proteins on the nonlinear dynamics of DNA
M. V. Sataric and J. A. Tuszynski
Phys. Rev. E 65, 051901 (2002)
- Pattern formation and coarsening during metastable phase separation in lysozyme solutions
S. Tanaka, M. Ataka, and K. Ito
Phys. Rev. E 65, 051804 (2002)
- Kinetic transition in model proteins with a denatured native spinodal
J. Wang, K. Fan, and W. Wang
Phys. Rev. E 65, 041925 (2002)
- Geometric and statistical properties of the mean-field hydrophobic-polar model, the large-small model, and real protein sequences
C. T. Shih, Z. Y. Su, J. F. Gwan, B. L. Hao, C. H. Hsieh, J. L. Lo, and H. C. Lee
Phys. Rev. E 65, 041923 (2002)
- Grouping of residues based on their contact interactions
J. Wang and W. Wang
Phys. Rev. E 65, 041911 (2002)
- Statistical properties of contact vectors
A. Kabakçioglu, I. Kanter, M. Vendruscolo, and E. Domany
Phys. Rev. E 65, 041904 (2002)
- Effects of ultraviolet radiation on the type-I collagen protein triple helical structure: A method for measuring structural changes through optical activity
A. J. Majewski, M. Sanzari, H.-L. Cui, and P. Torzilli
Phys. Rev. E 65, 031920 (2002)
- Excitons in a photosynthetic light-harvesting system: A combined molecular dynamics, quantum chemistry, and polaron model study
A. Damjanovic, I. Kosztin, U. Kleinekathöfer, and K. Schulten
Phys. Rev. E 65, 031919 (2002)
- Single molecule statistics and the polynucleotide unzipping transition
David K. Lubensky and David R. Nelson
Phys. Rev. E 65, 031917 (2002)
- Single molecule statistics and the polynucleotide unzipping transition
D. K. Lubensky and D. R. Nelson
Phys. Rev. E 65, 031917 (2002)
- General random matrix approach to account for the effect of static disorder on the spectral properties of light harvesting systems
M. K. Sener and K. Schulten
Phys. Rev. E 65, 031916 (2002)
- Investigation of the electric potential near the DNA-solvent interface: Conclusions about the stability of B-DNA
D. Ouroushev
Phys. Rev. E 65, 031913 (2002)
- Surface-induced conformational changes in lattice model proteins by Monte Carlo simulation
V. Castells, S. Yang, and P. R. Van Tassel
Phys. Rev. E 65, 031912 (2002)
- Convergence of sampling in protein simulations
B. Hess
Phys. Rev. E 65, 031910 (2002)
- Correlation studies of open and closed state fluctuations in an ion channel: Analysis of ion current through a large-conductance locust potassium channel
Z. Siwy, M. Ausloos, and K. Ivanova
Phys. Rev. E 65, 031907 (2002)
- Statistical mechanics of secondary structures formed by random RNA sequences
R. Bundschuh and T. Hwa
Phys. Rev. E 65, 031903 (2002)
- Phase equilibria and glass transition in colloidal systems with short-ranged attractive interactions: Application to protein crystallization
G. Foffi, G. D. McCullagh, A. Lawlor, E. Zaccarelli, K. A. Dawson, F. Sciortino, P. Tartaglia, D. Pini, and G. Stell
Phys. Rev. E 65, 031407 (2002)
- Entropy production and excess entropy in a nonequilibrium steady-state of single macromolecules
H. Qian
Phys. Rev. E 65, 021111 (2002)
- Model for calculation of electrostatic interactions in unfolded proteins
P. J. Kundrotas and A. Karshikoff
Phys. Rev. E 65, 011901 (2002)
- Interacting growth walk: A model for generating compact self-avoiding walks
S. L. Narasimhan, P. S. R. Krishna, K. P. N. Murthy, and M. Ramanadham
Phys. Rev. E 65, 010801 (2002)
- Group-fitted ab initiosingle- and multiple-scattering EXAFS Debye-Waller factors
N. Dimakis and G. Bunker
Phys. Rev. B 65, 201103 (2002)
- Energy transport in alpha -helical protein models: One-strand versus three-strand systems
D. Hennig
Phys. Rev. B 65, 174302 (2002)
- Coherent and incoherent photon-assisted electron tunneling in optoelectronic molecular devices in soft solids
J. D. Bodyfelt and Yu. Dahnovsky
Phys. Rev. B 65, 045301 (2002)