Download MendeleyModeling of the [E43S]SNase-ssDNA-Cd(2+) complex: Structural insight into the action of nuclease on ssDNA.
Xie, T., Feng, Y., Shan, L., Wang, J.(2013) Arch Biochem Biophys 532: 103-113
- PubMed: 23416741
- DOI: https://doi.org/10.1016/j.abb.2013.02.003
- Primary Citation of Related Structures:
2M00 - PubMed Abstract:
Staphylococcal nuclease (SNase) catalyzes the hydrolysis of the phosphate backbone of DNA and RNA leaving 3'-phosphate mononucleotides and dinucleotides. SNase has been extensively used as a model protein for investigating enzymatic mechanism, thermodynamic stability, and protein folding. An unanswered question regarding enzymatic structure-function relationship is how SNase is capable of binding DNA and catalyzing the DNA hydrolysis. For understanding the mechanism of SNase-DNA interaction at the structural level, we have investigated the interactions between the E43S-mutant SNase ([E43S]SNase) and ssDNA in the presence of Cd(2+) using various NMR techniques including pulsed field gradient diffusion measurement, NMR titration and affinity measurement, chemical shift mapping, backbone dynamics, and three dimensional structural determination. [E43S]SNase retains the similar DNA-binding ability to the native SNase but loses its catalytic activity, and binding of ssDNA/Cd(2+) to [E43S]SNase induced certain degree backbone conformational exchange motion in the ssDNA and Cd(2+) binding regions, which might account for the preferential binding of DNA. Based on the NMR-derived structure of ssDNA/Cd(2+)-bound [E43S]SNase, we have built a three-dimensional model of the [E43S]SNase-ssDNA-Cd(2+) complex. The resulting model enabled the functional roles of SNase to be discussed, in particular the action of nuclease on ssDNA.
Organizational Affiliation:
National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Beijing 100101, China.
