McLaughlin William A, Berman Helen M
Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway 08854-8087, USA.
J Mol Biol. 2003 Jun 27;330(1):43-55. doi: 10.1016/s0022-2836(03)00532-1.
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.
一种用于识别包含DNA结合螺旋-转角-螺旋（HTH）基序的蛋白质结构的方法已被开发出来。该方法使用基于该基序几何测量的统计模型。通过决策树模型，确定了DNA结合所需的关键结构特征。这些特征包括识别螺旋内残基的高平均溶剂可及性，以及识别螺旋与其前面的第二个α螺旋之间保守的疏水相互作用。使用通过Adaboost算法创建的更精确的基序模型在蛋白质数据库中进行搜索，以识别极有可能包含该基序的结构，包括那些以前未被报道过的结构。
