7VRF

Crystal structure of Oxpecker chromodomain in complex with H3K9me3

Summary for 7VRF

• Entry DOI: 10.2210/pdb7vrf/pdb
• Descriptor: Oxpecker, H3K9me3 (3 entities in total)
• Functional Keywords: chromodomain, histone binding, gene regulation
• Biological source: Drosophila melanogaster (Fruit fly); More
• Total number of polymer chains: 4
• Total formula weight: 19536.25

Authors

Huang, Y.,Jin, Z.,Yu, B. (deposition date: 2021-10-22, release date: 2022-10-26, Last modification date: 2023-11-29)

Primary citation

Jin, Z.,Yu, B.,Huang, Y.
Structural insights into the chromodomain of Oxpecker in complex with histone H3 lysine 9 trimethylation reveal a transposon silencing mechanism by heterodimerization.
Biochem.Biophys.Res.Commun., 652:95-102, 2023

PubMed Abstract: Oxpecker, the homolog of Rhino/HP1D, exclusively expressed in Drosophila ovaries, belongs to the Heterochromatin Protein 1 family, as does Rhino. Rhi recognizes piRNA clusters enriched with the heterochromatin marker H3K9me3 via its N-terminal chromodomain and recruits Deadlock via its C-terminal chromoshadow domain, further recruits Moonshiner, a paralog of the TATA box-binding protein-related factor 2 large subunits, to promote transcription of piRNA precursors, thereby protecting the genome. Despite Oxp possessing only the chromodomain, its loss leads to the upregulation of transposons in the female germline. In this study, we solved the crystal structure of the Oxp chromodomain in complex with the histone H3K9me3 peptide. As the Oxp chromodomain dimerizes, two H3K9me3 peptides bind to the Oxp chromodomain in an antiparallel manner. ITC experiments and site-directed mutagenesis experiments showed that E44 determines Oxp's five-fold stronger binding ability to H3K9me3 than that of Rhi. In addition, we found that Oxp and Rhi can form a heterodimer, which may shed light on the molecular mechanism by which Oxp regulates transposon silencing in the absence of CSD.

PubMed: 36841100
DOI: 10.1016/j.bbrc.2023.02.045

Experimental method

X-RAY DIFFRACTION (1.7 Å)