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FDPB-based methods calculate the change in the pK a value of an amino acid side chain when that side chain is moved from a hypothetical fully solvated state to its position in the protein. To perform such a calculation, one needs theoretical methods that can calculate the effect of the protein interior on a p K a value, and knowledge of the pKa ...
If positive and negative charges are both present in equal amounts, then this is the isoelectric point. Thus, the PZC refers to the absence of any type of surface charge, while the IEP refers to a state of neutral net surface charge. The difference between the two, therefore, is the quantity of charged sites at the point of net zero charge.
The net charge of the protein, determined by the sum charge of its constituents, results in electrophoretic migration in a physiologic electric field. These effects are short-range because of the high di-electric constant of water, however, once the protein is close to a charged surface, electrostatic coupling becomes the dominant force.
Upon the application of pressure on a test solution, liquid starts to flow and to generate an electric potential. This streaming potential is related to the pressure gradient between the ends of either a single flow channel (for samples with a flat surface) or the porous plug (for fibers and granular media) to calculate the surface zeta potential.
It is shown that electrostatic potential depends on the charge of the molecule, while the electrostatic free energy takes into account the net charge of the system. [ 14 ] Another example of utilizing the Poisson–Boltzmann equation is the determination of an electric potential profile at points perpendicular to the phospholipid bilayer of an ...
The overall net reaction is: Amino Acid + ATP + tRNA → Aminoacyl-tRNA + AMP + PP i. The net reaction is energetically favorable only because the pyrophosphate (PPi) is later hydrolyzed. The hydrolysis of pyrophosphate to two molecules of inorganic phosphate (Pi) reaction is highly energetically favorable and drives the other two reactions.
The net charge appearing as a result of polarization is called bound charge and denoted . This definition of polarization density as a "dipole moment per unit volume" is widely adopted, though in some cases it can lead to ambiguities and paradoxes.
Peptide bond formation via dehydration reaction. When two amino acids form a dipeptide through a peptide bond, [1] it is a type of condensation reaction. [2] In this kind of condensation, two amino acids approach each other, with the non-side chain (C1) carboxylic acid moiety of one coming near the non-side chain (N2) amino moiety of the other.