Solution structure and DNA-binding properties of the C-terminal domain of UvrC from E.coliSingh, S., Folkers, G.E., Bonvin, A.M.J.J., Boelens, R., Wechselberger, R., Niztayev, A., Kaptein, R.
(2002) EMBO J 21: 6257-6266
- PubMed: 12426397
- DOI: https://doi.org/10.1093/emboj/cdf627
- Primary Citation of Related Structures:
- PubMed Abstract:
The C-terminal domain of the UvrC protein (UvrC CTD) is essential for 5' incision in the prokaryotic nucleotide excision repair process. We have determined the three-dimensional structure of the UvrC CTD using heteronuclear NMR techniques. The structure shows two helix-hairpin-helix (HhH) motifs connected by a small connector helix. The UvrC CTD is shown to mediate structure-specific DNA binding. The domain binds to a single-stranded-double-stranded junction DNA, with a strong specificity towards looped duplex DNA that contains at least six unpaired bases per loop ("bubble DNA"). Using chemical shift perturbation experiments, the DNA-binding surface is mapped to the first hairpin region encompassing the conserved glycine-valine-glycine residues followed by lysine-arginine-arginine, a positively charged surface patch and the second hairpin region consisting of glycine-isoleucine-serine. A model for the protein-DNA complex is proposed that accounts for this specificity.
Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.