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This conformational state is here referred to as "crystal-like equilibrium conformation".
As a conclusion from these last data, the Rd.HMM are highly dependent on the backbone coordinates of the starting structure and relatively small deviations in bond lengths, bond angles and dihedrals from those most frequently found in protein crystals (as mentioned before, here, this conformational state is referred to as the crystal-like equilibrium conformation).
This variability is due to a dependence of the dynamics on the initial, random equilibrium conformation of the polymer coil.
The equilibrium conformation of such a deprotonated state (including its relative position to the membrane) will be considered as a reference for conformational changes upon protonation (see below).
In vitro, where there is neither a membrane potential nor a hydrophobic mismatch, a charge-carrying GPCR would be in an equilibrium conformation different from that observed under in vivoconditions.
In all potential-bearing membranes, the equilibrium conformation of a charge-carrying membrane protein is the result of a balance between forces of electrostatic potential and a hydrophobic mismatch.
Similar(33)
However, while puckering is central to glycobiology, e.g. ribose differs from deoxyribose by having different equilibrium conformations (Rich 2003), whether substituents affect the ensemble of pyranose ring conformers remains enigmatic because exchange occurs on microsecond timescales, which has been problematic for NMR and simulations, until recently (Sattelle et al. 2010).
Equilibrium conformations were obtained by potential energy minimization using a modified Newton algorithm.
As a simulation technique, simulated tempering algorithm was used to obtain equilibrium conformations of the molecule at ten distinct temperatures.
Not only is this potential an important source of energy for the cell, it also affects the equilibrium conformations of all membrane proteins that carry electric charges.
In the actual RC photosynthetic system the equilibrium conformations of molecules in the presence and absence of an electron can vary greatly due to these electron-conformational interactions.
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