title: Studies of DNA recognition mechanism of transcription factor IRF-4.
abstract: Transcription factor IFN regulatory factor-4 (IRF-4) prefers a DNA sequence including CCGAAA, though the consensus DNA-binding sequence of the IRF family proteins is NNGAAA, and the crystal structure of PU.1/IRF-4/DNA (GTGAAA) ternary complex indicates the NN region of DNA does not interact with IRF-4 directly. This suggests that there is an indirect DNA recognition mechanism in IRF-4. In order to account for the sequence preference of IRF-4, we focused on structural properties of DNA duplexes recognized by IRF-4. Here, we performed solution NMR studies on DNA duplexes containing GGGAAA and CCGAAA sequences, and assigned most of proton resonances of DNA 17 mer with GGGAAA. (1)H-(1)H NOESY spectra indicated B-form like structure for GGGAAA. We also assigned imino proton resonances of DNA 17 mer with CCGAAA. For the imino proton region, the (1)H-(1)H NOESY spectra of these two DNA duplexes were similar.
authors.affiliation: Laboratory of Biophysics, Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0192, Japan.
authors.forename: Kyoko
authors.initials: K
authors.lastname: Furuita
authors.forename: Itsuko
authors.initials: I
authors.lastname: Ishizaki
authors.forename: Harumi
authors.initials: H
authors.lastname: Fukada
authors.forename: Kazuo
authors.initials: K
authors.lastname: Yamamoto
authors.forename: Toshifumi
authors.initials: T
authors.lastname: Matsuyama
authors.forename: Makoto
authors.initials: M
authors.lastname: Nomura
authors.forename: Masaki
authors.initials: M
authors.lastname: Mishima
authors.forename: Chojiro
authors.initials: C
authors.lastname: Kojima
mesh_terms: D001483:Base Sequence; D001665:Binding Sites; D004247:DNA / Q000737:chemistry* / Q000378:metabolism; D050835:Interferon Regulatory Factors / Q000378:metabolism*; D019906:Nuclear Magnetic Resonance, Biomolecular; D011485:Protein Binding; D000099218:Interferon Regulatory Factor-4
chemical_list: D004247:DNA; D050835:Interferon Regulatory Factors; D000099218:Interferon Regulatory Factor-4