6FBQ

Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to the Human MEp DR1 Response Element, pH 7.0

Summary for 6FBQ

• Entry DOI: 10.2210/pdb6fbq/pdb
• Descriptor: Retinoic acid receptor RXR-alpha, DNA (5'-D(*CP*TP*GP*GP*GP*TP*CP*AP*AP*AP*GP*TP*TP*CP*AP*TP*C)-3'), DNA (5'-D(*GP*AP*TP*GP*AP*AP*CP*TP*TP*TP*GP*AP*CP*CP*CP*AP*G)-3'), ... (6 entities in total)
• Functional Keywords: transcription-dna complex, nuclear receptor, transcription
• Biological source: Homo sapiens (Human); More
• Total number of polymer chains: 4
• Total formula weight: 31410.53

Authors

McEwen, A.G.,Poussin-Courmontagne, P.,Osz, J.,Rochel, N. (deposition date: 2017-12-19, release date: 2018-12-05, Last modification date: 2024-01-17)

Primary citation

Osz, J.,McEwen, A.G.,Wolf, J.,Poussin-Courmontagne, P.,Peluso-Iltis, C.,Chebaro, Y.,Kieffer, B.,Rochel, N.
Modulation of RXR-DNA complex assembly by DNA context.
Mol. Cell. Endocrinol., 481:44-52, 2019

PubMed Abstract: Retinoid X Receptors (RXRs) act as dimer partners for several nuclear receptors including itself, binding to genomic DNA response elements and regulating gene transcription with cell and gene specificity. As homodimers, RXRs bind direct repeats of the half-site (A/G)G(G/T)TCA separated by 1 nucleotide (DR1) and little variability of this consensus site is observed for natural DR1s. However, these variations are responsible of the modulation of RXR receptors function through differential binding affinity and conformational changes. To further our understanding of the molecular mechanisms underlying RXR-DNA interactions, we examined how RXR DBDs bind to different DR1s using thermodynamics, X-ray crystallography and nuclear magnetic resonance (NMR) spectroscopy. We show that the half-site sequences modulate the binding cooperativity that results from the protein-protein contacts between the two DBDs. Chemical shifts perturbation NMR experiments revealed that sequence variations in half-sites induce changes that propagate from the protein-DNA interface to the dimerization interface throughout the DBD fold.

PubMed: 30476562
DOI: 10.1016/j.mce.2018.11.008

Experimental method

X-RAY DIFFRACTION (1.6 Å)