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A Novel Approach to Predict Core Residues on Cancer-Related DNA-Binding Domains.

ABSTRACT: Protein-DNA interactions are involved in different cancer pathways. In particular, the DNA-binding domains of proteins can determine where and how gene regulatory regions are bound in different cell lines at different stages. Therefore, it is essential to develop a method to predict and locate the core residues on cancer-related DNA-binding domains. In this study, we propose a computational method to predict and locate core residues on DNA-binding domains. In particular, we have selected the cancer-related DNA-binding domains for in-depth studies, namely, winged Helix Turn Helix family, homeodomain family, and basic Helix-Loop-Helix family. The results demonstrate that the proposed method can predict the core residues involved in protein-DNA interactions, as verified by the existing structural data. Given its good performance, various aspects of the method are discussed and explored: for instance, different uses of prediction algorithm, different protein domains, and hotspot threshold setting.

SUBMITTER: Wong KC

PROVIDER: S-EPMC4892203 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature

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A Novel Approach to Predict Core Residues on Cancer-Related DNA-Binding Domains.

Wong Ka-Chun KC

Cancer informatics 20160602 Suppl 2

Protein-DNA interactions are involved in different cancer pathways. In particular, the DNA-binding domains of proteins can determine where and how gene regulatory regions are bound in different cell lines at different stages. Therefore, it is essential to develop a method to predict and locate the core residues on cancer-related DNA-binding domains. In this study, we propose a computational method to predict and locate core residues on DNA-binding domains. In particular, we have selected the can ...[more]

PMID: 27279732

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