2R5Z

Structure of Scr/Exd complex bound to a DNA sequence derived from the fkh gene

Summary for 2R5Z

• Entry DOI: 10.2210/pdb2r5z/pdb
• Related: 1B8I 2R5Y
• Descriptor: DNA (5'-D(*DAP*DCP*DTP*DCP*DTP*DAP*DAP*DGP*DAP*DTP*DTP*DAP*DAP*DTP*DCP*DGP*DGP*DCP*DTP*DG)-3'), DNA (5'-D(*DTP*DCP*DAP*DGP*DCP*DCP*DGP*DAP*DTP*DTP*DAP*DAP*DTP*DCP*DTP*DTP*DAP*DGP*DAP*DG)-3'), Homeotic protein Sex combs reduced, ... (5 entities in total)
• Functional Keywords: homeodomain, homeotic proteins, specificity, developmental protein, dna-binding, homeobox, nucleus, transcription, transcription regulation, transcription-dna complex, transcription/dna
• Biological source: Drosophila melanogaster (fruit fly); More
• Cellular location: Nucleus: P09077 P40427
• Total number of polymer chains: 4
• Total formula weight: 30787.25

Authors

Aggarwal, A.K.,Passner, J.M.,Jain, R. (deposition date: 2007-09-04, release date: 2008-02-05, Last modification date: 2023-08-30)

Primary citation

Joshi, R.,Passner, J.M.,Rohs, R.,Jain, R.,Sosinsky, A.,Crickmore, M.A.,Jacob, V.,Aggarwal, A.K.,Honig, B.,Mann, R.S.
Functional specificity of a Hox protein mediated by the recognition of minor groove structure
Cell(Cambridge,Mass.), 131:530-543, 2007

PubMed Abstract: The recognition of specific DNA-binding sites by transcription factors is a critical yet poorly understood step in the control of gene expression. Members of the Hox family of transcription factors bind DNA by making nearly identical major groove contacts via the recognition helices of their homeodomains. In vivo specificity, however, often depends on extended and unstructured regions that link Hox homeodomains to a DNA-bound cofactor, Extradenticle (Exd). Using a combination of structure determination, computational analysis, and in vitro and in vivo assays, we show that Hox proteins recognize specific Hox-Exd binding sites via residues located in these extended regions that insert into the minor groove but only when presented with the correct DNA sequence. Our results suggest that these residues, which are conserved in a paralog-specific manner, confer specificity by recognizing a sequence-dependent DNA structure instead of directly reading a specific DNA sequence.

PubMed: 17981120
DOI: 10.1016/j.cell.2007.09.024

Experimental method

X-RAY DIFFRACTION (2.6 Å)