Abstract
A method for discerning protein structures containing the DNA-binding helix-turn-helix (HTH) motif has been developed. The method uses statistical models based on geometrical measurements of the motif. With a decision tree model, key structural features required for DNA binding were identified. These include a high average solvent-accessibility of residues within the recognition helix and a conserved hydrophobic interaction between the recognition helix and the second alpha helix preceding it. The Protein Data Bank was searched using a more accurate model of the motif created using the Adaboost algorithm to identify structures that have a high probability of containing the motif, including those that had not been reported previously.
Original language | English (US) |
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Pages (from-to) | 43-55 |
Number of pages | 13 |
Journal | Journal of molecular biology |
Volume | 330 |
Issue number | 1 |
DOIs | |
State | Published - Jun 27 2003 |
All Science Journal Classification (ASJC) codes
- Structural Biology
- Molecular Biology
Keywords
- DNA-binding
- Helix-turn-helix motif
- Machine learning
- Structure classification