Microscale Thermophoresis Analysis of Chromatin Interactions.

Publisher: Humana Press Country of Publication: United States NLM ID: 9214969 Publication Model: Print Cited Medium: Internet ISSN: 1940-6029 (Electronic) Linking ISSN: 10643745 NLM ISO Abbreviation: Methods Mol Biol Subsets: MEDLINE

Publication: Totowa, NJ : Humana Press
Original Publication: Clifton, N.J. : Humana Press,

Chromatin*/metabolism ; Chromatin*/genetics ; Nucleosomes*/metabolism ; Protein Binding* ; Histones*/metabolism; DNA/metabolism ; DNA/chemistry ; DNA/genetics ; DNA-Binding Proteins/metabolism ; DNA-Binding Proteins/chemistry ; Histone Chaperones/metabolism

Architectural DNA-binding proteins are key to the organization and compaction of genomic DNA inside cells. The activity of architectural proteins is often subject to further modulation and regulation through the interaction with a diverse array of other protein factors. Detailed knowledge on the binding modes involved is crucial for our understanding of how these protein-protein and protein-DNA interactions shape the functional landscape of chromatin in all kingdoms of life: bacteria, archaea, and eukarya.Microscale thermophoresis (MST) is a biophysical technique for the study of biomolecular interactions. It has seen increasing application in recent years thanks to its solution-based nature, rapid application, modest sample demand, and the sensitivity of the thermophoresis effect to binding events.Here, we describe the use of MST in the study of chromatin interactions. The emphasis lies on the wide range of ways in which these experiments are set up and the diverse types of information they reveal. These aspects are illustrated with four very different systems: the sequence-dependent DNA compaction by architectural protein HMfB, the sequential binding of core histone complexes to histone chaperone APLF, the impact of the nucleosomal context on the recognition of histone modifications, and the binding of a viral peptide to the nucleosome. Special emphasis is given to the key steps in the design, execution, and analysis of MST experiments in the context of the provided examples.
(© 2024. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.)

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Keywords: Binding affinity; Chaperone; Chromatin; DNA; HMf; Histone; IDP; MST; Nucleosome; Peptide

0 (Chromatin)
0 (Nucleosomes)
0 (Histones)
9007-49-2 (DNA)
0 (DNA-Binding Proteins)
0 (Histone Chaperones)

Date Created: 20240719 Date Completed: 20240719 Latest Revision: 20240719

20240719

10.1007/978-1-0716-3930-6_17

39028515