Comment on mobility-shift computations featuring cage effects.
Theoretical mobility-shift patterns are computed by solution of conservation equations for electrophoresis coupled with chemical reaction. The chemical reaction term is often formulated in terms of dissociation of the protein-DNA complex in a gel cage. This formulation assumes that once the dissociated protein escapes the cage, it goes down a sink and is totally lost. This implies that the concentration of the escaped protein is too low to affect significantly the rates of protein-DNA association along its migration pathway.
Cann
J R
JR
Department of Biochemistry/Biophysics/Genetics, University of Colorado Health Sciences Center, Denver 80262, USA.
D001426:Bacterial Proteins / Q000737:chemistry / Q000378:metabolism; D004247:DNA / Q000737:chemistry* / Q000378:metabolism; D004268:DNA-Binding Proteins / Q000737:chemistry* / Q000378:metabolism; D004355:Drug Stability; D004591:Electrophoresis, Polyacrylamide Gel; D007700:Kinetics
D001426:Bacterial Proteins; D004268:DNA-Binding Proteins; C040330:histone-like protein HU, bacteria; D004247:DNA