Thinking Outside the Box: Alternative Binding Sites in the Ligand Binding Domain of Nuclear Receptors

Author(s):  
Nerea Gallastegui ◽  
Eva Estébanez-Perpiñá
Author(s):  
Jérôme Eberhardt ◽  
Alastair G. McEwen ◽  
William Bourguet ◽  
Dino Moras ◽  
Annick Dejaegere

The retinoic X receptor (RXR) plays a crucial role in the superfamily of nuclear receptors (NRs) by acting as an obligatory partner of several nuclear receptors; its role as a transcription factor is thus critical in many signalling pathways, such as metabolism, cell development, differentiation and cellular death. The first published structure of the apo ligand-binding domain (LBD) of RXRα, which is still used as a reference today, contained inaccuracies. In the present work, these inaccuracies were corrected using modern crystallographic tools. The most important correction concerns the presence of a π-bulge in helix H7, which was originally built as a regular α-helix. The presence of several CHAPS molecules, which are visible for the first time in the electron-density map and which stabilize the H1–H3 loop, which contains helix H2, are also revealed. The apo RXR structure has played an essential role in deciphering the molecular mode of action of NR ligands and is still used in numerous biophysical studies. This refined structure should be used preferentially in the future in interpreting experiments as well as for modelling and structural dynamics studies of the apo RXRα LBD.


2002 ◽  
Vol 16 (7) ◽  
pp. 1502-1510 ◽  
Author(s):  
Yutaka Maeda ◽  
Christophe Rachez ◽  
Leo Hawel ◽  
Craig V. Byus ◽  
Leonard P. Freedman ◽  
...  

Abstract Nuclear receptors (NR) activate transcription by interacting with several different coactivator complexes, primarily via LXXLL motifs (NR boxes) of the coactivator that bind a common region in the ligand binding domain of nuclear receptors (activation function-2, AF–2) in a ligand-dependent fashion. However, how nuclear receptors distinguish between different sets of coactivators remains a mystery, as does the mechanism by which orphan receptors such as hepatocyte nuclear factor 4α (HNF4α) activate transcription. In this study, we show that HNF4α interacts with a complex containing vitamin D receptor (VDR)-interacting proteins (DRIPs) in the absence of exogenously added ligand. However, whereas a full-length DRIP205 construct enhanced the activation by HNF4α in vivo, it did not interact well with the HNF4α ligand binding domain in vitro. In investigating this discrepancy, we found that the polyamine spermine significantly enhanced the interaction between HNF4α and full-length DRIP205 in an AF-2, NR-box-dependent manner. Spermine also enhanced the interaction of DRIP205 with the VDR even in the presence of its ligand, but decreased the interaction of both HNF4α and VDR with the p160 coactivator glucocorticoid receptor interacting protein 1 (GR1P1). We also found that GR1P1 and DRIP205 synergistically activated HNF4α-mediated transcription and that a specific inhibitor of polyamine biosynthesis, α-difluoromethylornithine (DFMO), decreased the ability of HNF4α to activate transcription in vivo. These results lead us to propose a model in which polyamines may facilitate the switch between different coactivator complexes binding to NRs.


2012 ◽  
Vol 348 (2) ◽  
pp. 394-402 ◽  
Author(s):  
Víctor Buzón ◽  
Laia R. Carbó ◽  
Sara B. Estruch ◽  
Robert J. Fletterick ◽  
Eva Estébanez-Perpiñá

1998 ◽  
Vol 273 (43) ◽  
pp. 28371-28377 ◽  
Author(s):  
Frank C. S. Eng ◽  
Annie Barsalou ◽  
Naotake Akutsu ◽  
Isabelle Mercier ◽  
Christina Zechel ◽  
...  

1996 ◽  
Vol 3 (1) ◽  
pp. 87-94 ◽  
Author(s):  
Jean-Marie Wurtz ◽  
William Bourguet ◽  
Jean-Paul Renaud ◽  
Valérie Vivat ◽  
Pierre Chambon ◽  
...  

2000 ◽  
Vol 20 (4) ◽  
pp. 1124-1133 ◽  
Author(s):  
Lotta Johansson ◽  
Ann Båvner ◽  
Jane S. Thomsen ◽  
MatHias Färnegårdh ◽  
Jan-Åke Gustafsson ◽  
...  

ABSTRACT SHP (short heterodimer partner) is an unusual orphan nuclear receptor consisting only of a ligand-binding domain, and it exhibits unique features of interaction with conventional nuclear receptors. While the mechanistic basis of these interactions has remained enigmatic, SHP has been suggested to inhibit nuclear receptor activation by at least three alternatives; inhibition of DNA binding via dimerization, direct antagonism of coactivator function via competition, and possibly transrepression via recruitment of putative corepressors. We now show that SHP binds directly to estrogen receptors via LXXLL-related motifs. Similar motifs, referred to as NR (nuclear receptor) boxes, are usually critical for the binding of coactivators to the ligand-regulated activation domain AF-2 within nuclear receptors. In concordance with the NR box dependency, SHP requires the intact AF-2 domain of agonist-bound estrogen receptors for interaction. Mutations within the ligand-binding domain helix 12, or binding of antagonistic ligands, which are known to result in an incomplete AF-2 surface, abolish interactions with SHP. Supporting the idea that SHP directly antagonizes receptor activation via AF-2 binding, we demonstrate that SHP variants, carrying either interaction-defective NR box mutations or a deletion of the repressor domain, have lost the capacity to inhibit agonist-dependent transcriptional estrogen receptor activation. Furthermore, our studies indicate that SHP may function as a cofactor via the formation of ternary complexes with dimeric receptors on DNA. These novel insights provide a mechanistic explanation for the inhibitory role of SHP in nuclear receptor signaling, and they may explain how SHP functions as a negative coregulator or corepressor for ligand-activated receptors, a novel and unique function for an orphan nuclear receptor.


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