Nucleic Acids Research Advance Access published online on February 26, 2009
Nucleic Acids Research, doi:10.1093/nar/gkp097
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Structural Biology |
NMR structural analysis of DNA recognition by a novel Myb1 DNA-binding domain in the protozoan parasite Trichomonas vaginalis
1Institute of Biomedical Sciences, Academia Sinica, Taipei 115, 2Department of Life Science, National Tsing Hua University, Hsinchu 300, 3Chemical Biology and Molecular Biophysics, Taiwan International Graduate Program, Academia Sinica, Taipei 115, 4Graduate Institute of Life Sciences, National Defense Medical Center, Taipei 114, Taiwan, ROC and 5Department of Parasitology, College of Medicine, National Taiwan University, Taipei 106, Taiwan
*To whom correspondence should be addressed: Tel: +886 2 2652 3035; Fax: +886 2 2788 7641; Email: bmchinp{at}ibms.sinica.edu.tw
Received November 4, 2008. Revised February 5, 2009. Accepted February 6, 2009.
The transcription regulator, tvMyb1, is the first Myb family protein identified in Trichomonas vaginalis. Using an electrophoretic mobility shift assay, we defined the amino-acid sequence from Lys35 to Ser141 (tvMyb135–141) as the minimal DNA-binding domain, encompassing two Myb-like DNA-binding motifs (designated as R2 and R3 motifs) and an extension of 10 residues at the C-terminus. NMR solution structures of tvMyb135–141 show that both the R2 and R3 motifs adopt helix-turn-helix conformations while helix 6 in the R3 motif is longer than its counterpart in vertebrate Myb proteins. The extension of helix 6 was then shown to play an important role in protein stability as well as in DNA-binding activity. The structural basis for the tvMyb135–141/DNA interaction was investigated using chemical shift perturbations, residual dipolar couplings, DNA specificity data and data-driven macromolecular docking by HADDOCK. Our data indicate that the orientation between R2 and R3 motifs dramatically changes upon binding to DNA so as to recognize the DNA major groove through a number of key contacts involving residues in helices 3 and 6. The tvMyb135–141/DNA complex model furthers our understanding of DNA recognition by Myb proteins and this approach could be applied in determining the complex structures involving proteins with multiple domains.
The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.