7TO7

BRD3-BD1 in complex with RaPID linear peptide 1xAcK.4XE (monoAcK.4xE)

Summary for 7TO7

• Entry DOI: 10.2210/pdb7to7/pdb
• Descriptor: Bromodomain-containing protein 3, 1xAcK.4xE (monoAcK.4xE), GLYCEROL, ... (4 entities in total)
• Functional Keywords: bet, bromodomain, rapid, brd3, acetylated, transcription
• Biological source: Homo sapiens (human); More
• Total number of polymer chains: 6
• Total formula weight: 64175.78

Authors

Mackay, J.P.,Low, J.K.K.,Patel, K. (deposition date: 2022-01-23, release date: 2023-01-25, Last modification date: 2024-10-30)

Primary citation

Low, J.K.K.,Patel, K.,Jones, N.,Solomon, P.,Norman, A.,Maxwell, J.W.C.,Pachl, P.,Matthews, J.M.,Payne, R.J.,Passioura, T.,Suga, H.,Walport, L.J.,Mackay, J.P.
mRNA display reveals a class of high-affinity bromodomain-binding motifs that are not found in the human proteome.
J.Biol.Chem., 299:105482-105482, 2023

PubMed Abstract: Bromodomains (BDs) regulate gene expression by recognizing protein motifs containing acetyllysine. Although originally characterized as histone-binding proteins, it has since become clear that these domains interact with other acetylated proteins, perhaps most prominently transcription factors. The likely transient nature and low stoichiometry of such modifications, however, has made it challenging to fully define the interactome of any given BD. To begin to address this knowledge gap in an unbiased manner, we carried out mRNA display screens against a BD-the N-terminal BD of BRD3-using peptide libraries that contained either one or two acetyllysine residues. We discovered peptides with very strong consensus sequences and with affinities that are significantly higher than typical BD-peptide interactions. X-ray crystal structures also revealed modes of binding that have not been seen with natural ligands. Intriguingly, however, our sequences are not found in the human proteome, perhaps suggesting that strong binders to BDs might have been selected against during evolution.

PubMed: 37992806
DOI: 10.1016/j.jbc.2023.105482

Experimental method

X-RAY DIFFRACTION (1.93 Å)