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Updated: Jun 8, 2026

Reverse Yeast Two-hybrid System to Identify Mammalian Nuclear Receptor Residues that Interact with Ligands and/or Antagonists
Published on: November 15, 2013
Orphan nuclear receptors: structural mechanisms, ligand discovery, and therapeutic potential
Yunlong Liu1, Shirong Wei1, Ziheng Wang1
1School of Life Sciences, Tiangong University, Tianjin 300387, China.
Abstract:
Orphan nuclear receptors (ONRs) are members of the nuclear receptor superfamily initially identified without clearly defined endogenous high-affinity ligands. Nevertheless, increasing evidence demonstrates that they play essential roles in regulating metabolism, development, neural function, and tumorigenesis. Recent advances in structural biology, chemical biology, and systems biology have improved understanding of ligand recognition and regulatory mechanisms in these receptors. This review summarizes current progress in ONRs ligand research. ONRs are categorized according to their physiological roles in metabolic homeostasis, development and reproduction, and neuro-immune and cancer-related regulation, highlighting their involvement in diseases such as metabolic disorders, cancers, neurological diseases, and reproductive abnormalities. We discuss the structural basis of ligand recognition, focusing on conserved features of the ligand-binding domain (LBD) and structural variations, particularly in the α10 and AF-2 helices, that influence ligand accessibility and transcriptional regulation. Structural studies have revealed ligand-receptor complexes for representative ONRs, including ROR, HNF-4, REV-ERB, ERR, SF-1, and LRH-1, identifying ligand types such as lipids, heme, and phospholipids. In contrast, other receptors, including TR4, DAX-1, COUP-TFII, and Nur77, currently have only functional evidence supporting potential ligand interactions. Key strategies for ligand discovery include endogenous ligand co-purification, phenotype-based high-throughput screening, structural biology approaches, and structure-based virtual screening combined with molecular dynamics simulations. Major challenges include difficulties in endogenous ligand identification, context-dependent regulation, and limitations in achieving receptor subtype selectivity in drug development. Future progress will rely on integrating structural, biochemical, and multi-omics approaches to facilitate therapeutic targeting of ONRs.
Insights
Orphan nuclear receptors (ONRs) regulate key physiological processes. This review details ONR ligand research, highlighting their roles in metabolism, development, and disease, and discusses strategies for therapeutic targeting.
Area of Science:
- Molecular Biology
- Endocrinology
- Structural Biology
Background:
- Orphan nuclear receptors (ONRs) are crucial nuclear receptor superfamily members lacking defined ligands.
- They regulate vital functions including metabolism, development, neural activity, and tumorigenesis.
- Advances in structural and chemical biology enhance understanding of ONR ligand interactions.
Purpose of the Study:
- To review current progress in ONR ligand research.
- To categorize ONRs based on physiological roles and disease involvement.
- To discuss structural insights into ligand recognition and discovery strategies.
Main Methods:
- Literature review of ONR ligand research.
- Analysis of structural biology data for ligand-receptor complexes.
- Categorization of ONRs by physiological function and disease association.
- Discussion of ligand discovery strategies including co-purification and screening.
Main Results:
- ONRs are involved in metabolic homeostasis, development, reproduction, neuro-immune regulation, and cancer.
- Structural studies identified ligands like lipids, heme, and phospholipids for receptors such as ROR, HNF-4, and REV-ERB.
- Other ONRs like TR4 and DAX-1 show functional evidence for ligand interactions.
- Ligand discovery employs co-purification, screening, structural, and computational methods.
Conclusions:
- Understanding ONR ligand interactions is key to elucidating their roles in health and disease.
- Structural variations in ligand-binding domains influence receptor regulation.
- Challenges remain in ligand identification and achieving drug selectivity.
- Integrating multi-omics and structural approaches will advance therapeutic targeting of ONRs.
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