5ZFW

Crystal structure of human DUX4 homeodomains bound to A11G DNA mutant

Summary for 5ZFW

• Entry DOI: 10.2210/pdb5zfw/pdb
• Descriptor: Double homeobox protein 4-like protein 4, DNA (5'-D(*CP*CP*AP*CP*TP*AP*AP*CP*CP*TP*GP*AP*TP*CP*AP*CP*AP*CP*C)-3'), DNA (5'-D(*GP*GP*TP*GP*TP*GP*AP*TP*CP*AP*GP*GP*TP*TP*AP*GP*TP*GP*G)-3'), ... (4 entities in total)
• Functional Keywords: homeodomains, dux4, dna recognition, transcription-dna complex, transcription/dna
• Biological source: Homo sapiens (Human); More
• Total number of polymer chains: 3
• Total formula weight: 29037.36

Authors

Li, Y.Y.,Wu, B.X.,Gan, J.H. (deposition date: 2018-03-07, release date: 2018-10-31, Last modification date: 2023-11-22)

Primary citation

Li, Y.,Wu, B.,Liu, H.,Gao, Y.,Yang, C.,Chen, X.,Zhang, J.,Chen, Y.,Gu, Y.,Li, J.,Ma, J.,Gan, J.
Structural basis for multiple gene regulation by human DUX4.
Biochem. Biophys. Res. Commun., 505:1161-1167, 2018

PubMed Abstract: DUX4 plays critical role in the molecular pathogenesis of the neuromuscular disorder facioscapulohumeral muscular dystrophy and acute lymphoblastic leukemia in humans. As a master transcription regulator, DUX4 can also bind the promoters and activate the transcription of hundreds ZGA-associated genes. Here we report on the structural and biochemical studies of DUX4 double homeodomains (DUX4-DH), representing the only structures contain both homeodomain 1 (HD1) and homeodomain 2 (HD2). HD1 and HD2 adopt classical homeobox fold; via the helix inserted into the major groove and the N-terminal extended loop inserted into the minor groove, HD1 and HD2 recognize the box1 (5'-TAA-3') and box2 (5'-TGA-3') nucleotides of the consensus sequence, respectively. Among the box1 and box2 linking nucleotides (CCTAA), the two adenine residues are reported to be highly conserved; however, they are not directly recognized by DUX4-DH in the structures. Besides different nucleotides, our ITC analysis indicated that DUX4-DH can also tolerate various changes in the linker length. Our studies not only revealed the basis for target DNA recognition by DUX4, but also advanced our understanding on multiple gene activation by DUX4.

PubMed: 30322619
DOI: 10.1016/j.bbrc.2018.10.056

Experimental method

X-RAY DIFFRACTION (2.103 Å)