Contents
Biophysics

Vol. 51, Suppl. 1, 2006

The supplement is published only in English by Pleiades Publishing, Inc.
Distributed worldwide by Springer. Biophysics ISSN 0006-3509.

Analysis of the Nucleotide Context of Arabidopsis thaliana Mitochondrial mRNA Editing Sites

O. V. Vishnevsky, I. I. Titov, and Yu. M. Konstantinov p. 1  abstract

Pattern of Locally Positioned Dinucleotides Correlates with MicroRNA Abundance in Plants

I. V. Khomicheva, V. G. Levitsky, N. A. Omelyanchuk, S. A. Savinskaya, and N. A. Kolchanov p. 7  abstract

Correlation between the Contexts of the Translation Initiation Signal
and the N-Terminal Sequence of Arabidopsis, Yeast, Mouse, and Human Proteins

O. A. Volkova, S. E. Titov, and A. V. Kochetov p. 11  abstract

Translation of Some Chloroplast Genes Is Checked to Allow for Splicing and Editing

A. V. Seliverstov, O. A. Zverkov, and V. A. Lyubetsky p. 18  abstract

Solution of the Spatial Structure of Dimeric Transmembrane Domains
of Proteins by Heteronuclear NMR Spectroscopy and Molecular Modeling

P. E. Volynsky, E. V. Bocharov, D. E. Nolde, Ya. A. Vereschaga, M. L. Mayzel,
K. S. Mineev, E. A. Mineeva, Yu. E. Pustovalova, I. A. Gagnidze,
R. G. Efremov, and A. S. Arseniev p. 23  abstract

Modeling Context-Dependent Conformation Parameters of DNA Duplexes

Y. N. Vorobjev and D. Yu. Emel’yanov p. 28  abstract

Corroboration of the Functional Role of the Additional Zinc Binding Site
in the G245C Mutant Form of the p53 Protein

E. S. Fomin and V. A. Ivanisenko p. 35  abstract

Evaluation of Direct Effects of Protein Ubiquitylation Using Computational Analysis

A. L. Chernorudskiy, A. S. Shorina, A. Garcia, and M. R. Gainullin p. 39  abstract

Simulation of Protein Misfolding Using a Lattice Model

A. Yu. Pal’yanov, I. I. Titov, S. F. Chekmarev, and M. Karplus p. 44  abstract

Prediction of the Changes in Thermodynamic Stability of Proteins
Caused by Single Amino Acid Substitutions

P. S. Demenkov, E. E. Aman, and V. A. Ivanisenko p. 49  abstract

Conformational Properties of Short Oligopeptides: Prediction of the Protein Chain Conformation

P. K. Vlasov, A. V. Vlasova, N. G. Esipova, and V. G. Tumanyan p. 54  abstract

Prediction of Contact Numbers of Amino Acid Residues
Using a Neural Network Regression Algorithm

D. A. Afonnikov, A. V. Morozov, and N. A. Kolchanov p. 56  abstract

Modeling of Asymmetric Gene Networks Functioning with Different Types of Regulation

V. P. Golubyatnikov, Yu. A. Gaidov, A. G. Kleshchev, and E. P. Volokitin p. 61  abstract

“GREENCE” Technology for In Silico Analysis of Gene Network Dynamics
in Individual Cells of a Clonal Population

A. V. Galimzyanov p. 66  abstract

Mathematical Modeling of the Reproduction of the Hepatitis C Virus Replicon in Cell Culture.
Simulation of the Action of Potential Therapeutics

K. D. Bezmaternykh, E. L. Mishchenko, A. V. Ratushny, V. A. Likhoshvai,
T. M. Khlebodarova, and V. A. Ivanisenko p. 70  abstract

A Systems Approach to Morphogenesis in Arabidopsis thaliana: I. AGNS Database

N. A. Omelyanchuk, V. V. Mironova, E. M. Zalevsky, I. S. Shamov, A. S. Poplavsky,
N. L. Podkolodny, D. K. Ponomaryov, S. V. Nikolaev, E. D. Mjolsness,
E. M. Meyerowitz, and N. A. Kolchanov p. 75  abstract

A Systems Approach to Morphogenesis in Arabidopsis thaliana:
II. Modeling the Regulation of Shoot Apical Meristem Structure

S. V. Nikolaev, S. I. Fadeev, A. V. Penenko, V. V. Lavrekha, V. V. Mironova,
N. A. Omelyanchuk, E. D. Mjolsness, and N. A. Kolchanov p. 83  abstract

A Cellular Automaton Model of Morphogenesis in Arabidopsis thaliana

I. R. Akberdin, E. A. Ozonov, V. V. Mironova, D. N. Gorpinchenko,
N. A. Omelyanchuk, V. A. Likhoshvai, and N. A. Kolchanov p. 91  abstract

Mathematical Modeling of Intracellular Membrane Transport:
Receptor-Mediated Endocytosis and Degradation of Low-Density Lipoproteins

A. V. Ratushny and V. A. Likhoshvai p. 95  abstract

Multidimensional Analysis and Functional Assignment of DNA-Microarray Transcription Profiles
of Genes Involved in Adipogenesis

A. V. Katokhin, V. M. Efimov, M. Sh. Badratinov, O. K. Kamneva, and V. A. Mordvinov p. 100  abstract

MOLKERN: A Library of Software Components for Molecular Modeling Programs

E. S. Fomin, N. A. Alemasov, A. S. Chirtsov, and A. E. Fomin p. 110  abstract

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