Abstract Table of Contents Materials Literature Cited Abstract In vitro analysis of DNA in chromatin is often important for understanding mechanisms of regulation of transcription and other processes that occur on DNA. The basic unit of ch
Abstract Table of Contents Materials Figures Literature Cited Abstract The native chromatin complex within most eukaryotic nuclei is very difficult to study by biochemical means, so researchers have devel
Abstract Table of Contents Materials Figures Literature Cited Abstract Due to their similarities in size and charge, complete resolution of histones by electrophoresis poses a considerable challenge. The
Abstract Table of Contents Materials Figures Literature Cited Abstract Genetic manipulations, including gene knock?outs and mutant screens, provide an initial hint as to the function of a gene product and
Abstract Table of Contents Materials Figures Literature Cited Abstract Phage?based expression cloning is a simple, rapid, and powerful technique to identify interacting proteins. A protein of interest is
Abstract Table of Contents Materials Figures Literature Cited Abstract This unit describes the use of proteins fused to glutathione?S?transferase (GST fusion proteins) to affinity purify other proteins, a t
Abstract Table of Contents Materials Figures Literature Cited Abstract Affinity chromatography is a very effective and straightforward means of purifying a protein based on its sequence?specific DNA?bindi
Abstract Table of Contents Materials Literature Cited Abstract To detect DNA binding activity, radiolabeled protein is incubated with specific DNA fragments, and protein?DNA complexes are separated from free protein by electrophoresis in n
Abstract Table of Contents Materials Figures Literature Cited Abstract Nitrocellulose binds proteins but not double?stranded DNA. Use of radioactively labeled double?stranded DNA fragments allows quantita
Abstract Table of Contents Materials Figures Literature Cited Abstract Short fragments of DNA?either natural or formed from oligonucleotides?containing a high?affinity site for a DNA?binding protein provi
Abstract Table of Contents Materials Figures Literature Cited Abstract Irradiation of protein?nucleic acid complexes with ultraviolet light causes covalent bonds to form between the nucleic acid and prote
Abstract Table of Contents Materials Figures Literature Cited Abstract Deoxyribonuclease I (DNase I) protection mapping, or footprinting, is a valuable technique for locating the specific binding sites of
Abstract Table of Contents Materials Figures Literature Cited Abstract Interference assays identify specific residues in the DNA binding site that, when modified, interfere with binding of the protein. Th
Abstract Table of Contents Materials Figures Literature Cited Abstract The DNA?binding assay using nondenaturing polyacrylamide gel electrophoresis (PAGE) provides a simple, rapid, and extremely sensitive
Abstract Table of Contents Materials Figures Literature Cited Abstract FRET microscopy enables the detection of different biochemical states of proteins in cells. The use of fluorescence in the detection
Abstract Table of Contents Materials Literature Cited Abstract The proteins of Saccharomyces cervsiae can be metabolically labeled, as described here, with 35methionine and 35cysteine or a hydrolysate of E. coli labeled with 35O42?. After th
Abstract Table of Contents Materials Figures Literature Cited Abstract This unit provides protocols for prenylation and carboxy?methylation of proteins in cultured cells. These modifications often accompa
Abstract Table of Contents Materials Figures Literature Cited Abstract Covalent attachment of radiolabeled fatty acids (e.g., myristate or palmitate) is an alternative method for labeling proteins. This uni
Abstract Table of Contents Materials Literature Cited Abstract Post?translational modifications of proteins make it possible to determine where a protein normally resides or to follow its transport through the cell. One such modification i
Abstract Table of Contents Materials Literature Cited Abstract Metabolic labeling techniques are used to study the biosynthesis, processing, intracellular transport, secretion, degradation, and physical?chemical properties of proteins. Thi