Analysis and classification of DNA-binding sites in single-stranded and double-stranded DNA-binding proteins using protein information.

ABSTRACT: Single-stranded DNA-binding proteins (SSBs) and double-stranded DNA-binding proteins (DSBs) play different roles in biological processes when they bind to single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA). However, the underlying binding mechanisms of SSBs and DSBs have not yet been fully understood. Here, the authors firstly constructed two groups of ssDNA and dsDNA specific binding sites from two non-redundant sets of SSBs and DSBs. They further analysed the relationship between the two classes of binding sites and a newly proposed set of features (residue charge distribution, secondary structure and spatial shape). To assess and utilise the predictive power of these features, they trained a classification model using support vector machine to make predictions about the ssDNA an

SUBMITTER: Wang W 

PROVIDER: S-EPMC8687298 | biostudies-literature | 2014 Aug

REPOSITORIES: biostudies-literature