Chemical Biophysics. Quantitative Analysis of Cellular by Daniel A. Beard PDF

By Daniel A. Beard

ISBN-10: 0521870704

ISBN-13: 9780521870702

Chemical Biophysics presents an engineering-based method of biochemical approach research for graduate-level classes on platforms biology, computational bioengineering and molecular biophysics. it's the first textbook to use rigorous actual chemistry rules to mathematical and computational modeling of biochemical platforms for an interdisciplinary viewers. The e-book is dependent to teach the scholar the fundamental biophysical innovations ahead of employing this thought to computational modeling and research, build up to complicated themes and present learn. subject matters explored comprise the kinetics of nonequilibrium open organic platforms, enzyme mediated reactions, metabolic networks, organic delivery strategies, large-scale biochemical networks and stochastic techniques in biochemical platforms. End-of-chapter workouts diversity from confidence-building calculations to computational simulation tasks.

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Extra info for Chemical Biophysics. Quantitative Analysis of Cellular Systems

Example text

2 Conventions and calculations for biochemical systems Overview Biochemical species, from small-molecule metabolites such as inorganic phosphate to large proteins, reversibly bind hydrogen and metal ions, altering their thermochemical properties. Inorganic phosphate, for example, may exist in solution in several different states of protonation, including H2 PO4 − and HPO4 2− . Yet in the biochemical literature it is standard practice to refer to the concentration of inorganic phosphate without explicitly considering the different species that contribute to its overall concentration.

More conventionally, r G o and r G are expressed in units of the change in free energy per mole of flux through a reaction. 37) i=1 where f G io is the free energy of formation of species i. The value of f G io for a given species depends on the environmental conditions, most notably temperature, pressure, and the ionic solution strength. The ionic strength affects the activity coefficients of charged species; this phenomenon is addressed in the next chapter. Chemical equilibrium is achieved when the driving force for the reaction r G goes to zero.

32) i=1 where {Ai } represent chemical species and {νi } are the stoichiometric coefficients. 33) the stoichiometric coefficients are ν1 = −1, ν2 = −2, and ν3 = +1. 34) i=1 where the variable φ represents the turnover or the number of times the reaction has progressed. 34) we make the following definition dG dφ rG = Ns = P,T µi νi . 36) i=1 Ns where r G o = i=1 νi µio . In these equations r G o and r G are expressed as the change in free energy associated with a single turnover of the reaction.

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Chemical Biophysics. Quantitative Analysis of Cellular Systems by Daniel A. Beard

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