7EF3

crystal structure of maize SHH2 SAWADEE domain in complex with H3K9me2 peptide

Summary for 7EF3

• Entry DOI: 10.2210/pdb7ef3/pdb
• Descriptor: HB transcription factor, Histone H3.2, ZINC ION, ... (4 entities in total)
• Functional Keywords: shh2, maize, h3k9me2, histone, gene regulation
• Biological source: Zea mays (Maize); More
• Total number of polymer chains: 4
• Total formula weight: 38313.87

Authors

Wang, Y.,Du, J. (deposition date: 2021-03-20, release date: 2021-06-30, Last modification date: 2023-11-29)

Primary citation

Wang, Y.,Zhou, X.,Luo, J.,Lv, S.,Liu, R.,Du, X.,Jia, B.,Yuan, F.,Zhang, H.,Du, J.
Recognition of H3K9me1 by maize RNA-directed DNA methylation factor SHH2.
J Integr Plant Biol, 63:1091-1096, 2021

PubMed Abstract: RNA-directed DNA methylation (RdDM) is a plant-specific de novo DNA methylation pathway, which has extensive cross-talk with histone modifications. Here, we report that the maize RdDM regulator SAWADEE HOMEODOMAIN HOMOLOG 2 (SHH2) is an H3K9me1 reader. Our structural studies reveal that H3K9me1 recognition is achieved by recognition of the methyl group via a classic aromatic cage and hydrogen-bonding and salt-bridge interactions with the free protons of the mono-methyllysine. The di- and tri-methylation states disrupt the polar interactions, decreasing the binding affinity. Our study reveals a mono-methyllysine recognition mechanism which potentially links RdDM to H3K9me1 in maize.

PubMed: 33913587
DOI: 10.1111/jipb.13103

Experimental method

X-RAY DIFFRACTION (2.1 Å)