2V0V

Crystal Structure of Rev-Erb beta

Summary for 2V0V

• Entry DOI: 10.2210/pdb2v0v/pdb
• Descriptor: ORPHAN NUCLEAR RECEPTOR NR1D2 (2 entities in total)
• Functional Keywords: zinc, receptor, repressor, zinc-finger, dna-binding, constitutive repression, transcription regulation, orphan receptor, a-helical sandwich, transcription, metal-binding, nuclear protein
• Biological source: HOMO SAPIENS (HUMAN)
• Total number of polymer chains: 4
• Total formula weight: 87776.66

Authors

Woo, E.-J.,Jeong, D.G.,Lim, M.-Y.,Jun Kim, S.,Eon Ryu, S. (deposition date: 2007-05-19, release date: 2007-10-23, Last modification date: 2024-05-08)

Primary citation

Woo, E.-J.,Jeong, D.G.,Lim, M.-Y.,Jun Kim, S.,Kim, K.-J.,Yoon, S.-M.,Park, B.-C.,Eon Ryu, S.
Structural Insight Into the Constitutive Repression Function of the Nuclear Receptor Rev-Erbbeta
J.Mol.Biol., 373:735-, 2007

PubMed Abstract: The Rev-erb family is an orphan nuclear receptor acting as a negative regulator of transcription. Rev-erbalpha and Rev-erbbeta are crucial components of the circadian clock and involved in various lipid homeostasis. They are unique nuclear receptors that lack the activation function 2 helix (AF2-helix) required for ligand-dependent activation by other members of nuclear receptors. Here, we report the crystal structure of Rev-erbbeta (NR1D2) in a dimeric arrangement. The putative ligand-binding pocket (LBP) of Rev-erbbeta is filled with bulky hydrophobic residues resulting in a residual cavity size that is too small to allow binding of any known ligand molecules. However, an alternative conformation of the putative LBP observed in another crystal form suggests the flexibility of this region. The kinked conformation of helix H11 allows helix H11 to bend toward helix H3 over the putative ligand binding pocket by filling and closing the cavity with its side-chains. In the absence of the AF2-helix and a cognate ligand, Rev-erbbeta appears to stabilize the hydrophobic cluster in the putative ligand binding pocket and provide a structural platform for co-repressor binding by adopting the unique geometry of helix H11, a suitable conformation for the constitutive repression activity.

PubMed: 17870090
DOI: 10.1016/J.JMB.2007.08.037

Experimental method

X-RAY DIFFRACTION (2.4 Å)