Does bromodomain flexibility influence histone recognition?
| Title | Does bromodomain flexibility influence histone recognition? |
| Publication Type | Journal Article |
| Year of Publication | 2013 |
| Authors | Steiner S., Magno A., Huang D., Caflisch A. |
| Journal | FEBS Letters |
| Volume | 587 |
| Issue | 14 |
| Pagination | 2158-2163 |
| Date Published | 2013 Jul 11 |
| Type of Article | Research Article |
| Keywords | Acetylation, Adenosine Triphosphatases, Amino Acid Motifs, Binding Sites, Chromosomal Proteins, Non-Histone, CREB-Binding Protein, DNA Helicases, DNA-Binding Proteins, Histone Acetyltransferases, Histones, Hydrogen Bonding, Molecular Dynamics Simulation, Nuclear Proteins, Protein Binding, Protein Interaction Domains and Motifs, Protein Processing, Post-Translational, Protein Structure, Secondary, TATA-Binding Protein Associated Factors, Transcription Factor TFIID, Transcription Factors |
| Abstract | Bromodomains are protein modules that selectively recognize histones by binding to acetylated lysines. Here, we have carried out multiple molecular dynamics simulations of 20 human bromodomains to investigate the flexibility of their binding site. Some bromodomains show alternative side chain orientations of three evolutionarily conserved residues: the Asn involved in acetyl-lysine binding and two conserved aromatic residues. Furthermore, for the BAZ2B and CREBBP bromodomains we observe occlusion of the binding site which is coupled to the displacement of the two aromatic residues. In contrast to available structures, the simulations reveal large variability of the binding site accessibility. The simulations suggest that the flexibility of the bromodomain binding site and presence of self-occluded metastable states influence the recognition of acetyl-lysine on histone tails. |
| DOI | 10.1016/j.febslet.2013.05.032 |
| pubindex | 0173 |
| Alternate Journal | FEBS Lett. |
| PubMed ID | 23711371 |
