ProteDNA: a sequence-based predictor of sequence-specific DNA-binding residues in transcription factors.

ABSTRACT: This article presents the design of a sequence-based predictor named ProteDNA for identifying the sequence-specific binding residues in a transcription factor (TF). Concerning protein-DNA interactions, there are two types of binding mechanisms involved, namely sequence-specific binding and nonspecific binding. Sequence-specific bindings occur between protein sidechains and nucleotide bases and correspond to sequence-specific recognition of genes. Therefore, sequence-specific bindings are essential for correct gene regulation. In this respect, ProteDNA is distinctive since it has been designed to identify sequence-specific binding residues. In order to accommodate users with different application needs, ProteDNA has been designed to operate under two modes, namely, the high-precision mode a

SUBMITTER: Chu WY 

PROVIDER: S-EPMC2703882 | biostudies-literature | 2009 Jul

REPOSITORIES: biostudies-literature