Diagonal Gel Mobility-Shift Assays for the Resolution of Multi-Subunit Complexes Binding to Regulatory Elements of Specific Genes

Abstract

In gel mobility-shift assays, it often occurs that a number of different protein-DNA complexes are formed with a single labelled oligonucleotide. These different complexes may represent either: i) different proteins interacting with different, overlapping sites within the oligonucleotide, ii) a family of different proteins interacting with exactly the same site within the oligonucleotide, iii) differential modifications of a single protein binding to a single site, iv) multimeric complexes interacting with a single binding site through a common DNA-binding protein, or v) some combination of the above possibilities.