Solution structure of the B3 DNA binding domain of the Arabidopsis cold-responsive transcription factor RAV1.
The B3 DNA binding domain is shared amongst various plant-specific transcription factors, including factors involved in auxin-regulated and abscisic acid-regulated transcription. Herein, we report the NMR solution structure of the B3 domain of the Arabidopsis thaliana cold-responsive transcription factor RAV1. The structure consists of a seven-stranded open beta-barrel and two alpha-helices located at the ends of the barrel and is significantly similar to the structure of the noncatalytic DNA binding domain of the restriction enzyme EcoRII. An NMR titration experiment revealed a DNA recognition interface that enabled us to propose a structural model of the protein-DNA complex. The locations of the DNA-contacting residues are also likely to be similar to those of the EcoRII DNA binding domain.
Yamasaki
Kazuhiko
K
Age Dimension Research Center, National Institute of Advanced Industrial Science and Technology, Tsukuba 305-8566, Japan. k-yamasaki@aist.go.jp
Kigawa
Takanori
T
Inoue
Makoto
M
Tateno
Masaru
M
Yamasaki
Tomoko
T
Yabuki
Takashi
T
Aoki
Masaaki
M
Seki
Eiko
E
Matsuda
Takayoshi
T
Tomo
Yasuko
Y
Hayami
Nobuhiro
N
Terada
Takaho
T
Shirouzu
Mikako
M
Osanai
Takashi
T
Tanaka
Akiko
A
Seki
Motoaki
M
Shinozaki
Kazuo
K
Yokoyama
Shigeyuki
S
D000064:Acclimatization / Q000502:physiology; D000595:Amino Acid Sequence / Q000502:physiology; D017360:Arabidopsis / Q000235:genetics / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D001665:Binding Sites / Q000235:genetics; D003080:Cold Temperature; D004247:DNA / Q000378:metabolism*; D004268:DNA-Binding Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D015252:Deoxyribonucleases, Type II Site-Specific / Q000737:chemistry / Q000378:metabolism; D019143:Evolution, Molecular; D008958:Models, Molecular; D008968:Molecular Conformation; D019906:Nuclear Magnetic Resonance, Biomolecular; D010802:Phylogeny; D017433:Protein Structure, Secondary / Q000502:physiology; D017434:Protein Structure, Tertiary / Q000235:genetics; D017386:Sequence Homology, Amino Acid
D029681:Arabidopsis Proteins; D004268:DNA-Binding Proteins; C117695:RAV1 protein, Arabidopsis; D004247:DNA; C046545:CCWGG-specific type II deoxyribonucleases; D015252:Deoxyribonucleases, Type II Site-Specific