Optimal DNA sequence recognition by the Ultrabithorax homeodomain of Drosophila

Stephen C Ekker, K. E. Young, D. P. Von Kessler, P. A. Beachy

Research output: Contribution to journalArticle

121 Citations (Scopus)

Abstract

The 61 amino acid homeodomain is conserved among members of a family of eukaryotic DNA-binding proteins that play regulatory roles in transcription and in development. We have refined a rapid method for determining optimal DNA binding sites and have applied it to a 72 amino acid peptide containing the homeodomain of the Ultrabithorax (Ubx) homeotic gene of Drosophila. The site (5'-TTAATGG-3') is tightly bound (K(D) ~7 x 10-11 M) by the Ubx homeodomain peptide; the four central TAAT bases of this sequence play a primary role in determining the affinity of binding, with significant secondary contributions deriving from the flanking bases. Although previously defined genomic sites contain multiple TAAT sequences with flanking bases distinct from those in the optimal binding site, we have found a new binding site with seven near-perfect repeats of the optimal sequence; this site is located in the promoter region of decapentaplegic, a probable Ubx regulatory target. The presence of a TAAT motif in the binding sites for most other homeodomain proteins suggests the existence of a conserved mechanism for recognition of this core sequence, with further specificity conferred by interactions with bases flanking this core.

Original languageEnglish (US)
Pages (from-to)1179-1186
Number of pages8
JournalEMBO Journal
Volume10
Issue number5
StatePublished - 1991
Externally publishedYes

Fingerprint

DNA sequences
Drosophila
Binding Sites
Homeodomain Proteins
Amino Acids
Peptides
Homeobox Genes
DNA-Binding Proteins
Transcription
Genetic Promoter Regions
Genes
DNA

Keywords

  • development
  • DNA recognition
  • Drosophila
  • homeodomain
  • Ultrabithorax

ASJC Scopus subject areas

  • Cell Biology
  • Genetics

Cite this

Ekker, S. C., Young, K. E., Von Kessler, D. P., & Beachy, P. A. (1991). Optimal DNA sequence recognition by the Ultrabithorax homeodomain of Drosophila. EMBO Journal, 10(5), 1179-1186.

Optimal DNA sequence recognition by the Ultrabithorax homeodomain of Drosophila. / Ekker, Stephen C; Young, K. E.; Von Kessler, D. P.; Beachy, P. A.

In: EMBO Journal, Vol. 10, No. 5, 1991, p. 1179-1186.

Research output: Contribution to journalArticle

Ekker, SC, Young, KE, Von Kessler, DP & Beachy, PA 1991, 'Optimal DNA sequence recognition by the Ultrabithorax homeodomain of Drosophila', EMBO Journal, vol. 10, no. 5, pp. 1179-1186.
Ekker, Stephen C ; Young, K. E. ; Von Kessler, D. P. ; Beachy, P. A. / Optimal DNA sequence recognition by the Ultrabithorax homeodomain of Drosophila. In: EMBO Journal. 1991 ; Vol. 10, No. 5. pp. 1179-1186.
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