5L0M image
Deposition Date 2016-07-27
Release Date 2016-11-09
Last Version Date 2023-10-04
Entry Detail
PDB ID:
5L0M
Title:
hLRH-1 DNA Binding Domain - 12bp Oct4 promoter complex
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Mus musculus (Taxon ID: 10090)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.20 Å
R-Value Free:
0.19
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 43
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nuclear receptor subfamily 5 group A member 2
Gene (Uniprot):NR5A2
Chain IDs:A
Chain Length:112
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(*GP*GP*TP*CP*AP*AP*GP*GP*CP*TP*AP*G)-3')
Chain IDs:C (auth: B)
Chain Length:12
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(*CP*TP*AP*GP*CP*CP*TP*TP*GP*AP*CP*C)-3')
Chain IDs:B (auth: C)
Chain Length:12
Number of Molecules:1
Biological Source:Mus musculus
Primary Citation
A Structural Investigation into Oct4 Regulation by Orphan Nuclear Receptors, Germ Cell Nuclear Factor (GCNF), and Liver Receptor Homolog-1 (LRH-1).
J. Mol. Biol. 428 4981 4992 (2016)
PMID: 27984042 DOI: 10.1016/j.jmb.2016.10.025

Abstact

Oct4 is a transcription factor required for maintaining pluripotency and self-renewal in stem cells. Prior to differentiation, Oct4 must be silenced to allow for the development of the three germ layers in the developing embryo. This fine-tuning is controlled by the nuclear receptors (NRs), liver receptor homolog-1 (LRH-1) and germ cell nuclear factor (GCNF). Liver receptor homolog-1 is responsible for driving the expression of Oct4 where GCNF represses its expression upon differentiation. Both receptors bind to a DR0 motif located within the Oct4 promoter. Here, we present the first structure of mouse GCNF DNA-binding domain in complex with the Oct4 DR0. The overall structure revealed two molecules bound in a head-to-tail fashion on opposite sides of the DNA. Additionally, we solved the structure of the human LRH-1 DNA-binding domain bound to the same element. We explore the structural elements that govern Oct4 recognition by these two NRs.

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Primary Citation of related structures
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