4CN3

Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to the Human Gde1SpA Response Element

Summary for 4CN3

• Entry DOI: 10.2210/pdb4cn3/pdb
• Related: 4CN2 4CN5 4CN7
• Descriptor: RETINOIC ACID RECEPTOR RXR-ALPHA, 5'-D(*CP*TP*AP*GP*TP*TP*CP*AP*AP*AP*GP*TP*TP*CP *AP*CP*A)-3', 5'-D(*TP*GP*TP*GP*AP*AP*CP*TP*TP*TP*GP*AP*AP*CP *TP*AP*G)-3', ... (6 entities in total)
• Functional Keywords: transcription-dna complex, transcription/dna
• Biological source: HOMO SAPIENS (HUMAN); More
• Cellular location: Nucleus : P19793 4CN3
• Total number of polymer chains: 8
• Total formula weight: 62399.57

Authors

McEwen, A.G.,Poussin-Courmontagne, P.,Osz, J.,Rochel, N. (deposition date: 2014-01-21, release date: 2015-02-18, Last modification date: 2023-12-20)

Primary citation

Osz, J.,Mcewen, A.G.,Poussin-Courmontagne, P.,Moutier, E.,Birck, C.,Davidson, I.,Moras, D.,Rochel, N.
Structural Basis of Natural Promoter Recognition by the Retinoid X Nuclear Receptor.
Sci.Rep., 5:8216-, 2015

PubMed Abstract: Retinoid X receptors (RXRs) act as homodimers or heterodimerisation partners of class II nuclear receptors. RXR homo- and heterodimers bind direct repeats of the half-site (A/G)G(G/T)TCA separated by 1 nucleotide (DR1). We present a structural characterization of RXR-DNA binding domain (DBD) homodimers on several natural DR1s and an idealized symmetric DR1. Homodimers displayed asymmetric binding, with critical high-affinity interactions accounting for the 3' positioning of RXR in heterodimers on DR1s. Differing half-site and spacer DNA sequence induce changes in RXR-DBD homodimer conformation notably in the dimerization interface such that natural DR1s are bound with higher affinity than an idealized symmetric DR1. Subtle changes in the consensus DR1 DNA sequence therefore specify binding affinity through altered RXR-DBD-DNA contacts and changes in DBD conformation suggesting a general model whereby preferential half-site recognition determines polarity of heterodimer binding to response elements.

PubMed: 25645674
DOI: 10.1038/SREP08216

Experimental method

X-RAY DIFFRACTION (2.35 Å)