(1) Department of Bioinformatics and Bioscience, Kyushu Institute of Technology, Iizuka 820 8502, Fukuoka, Japan;(2) Department of Biosciences, Jamia Millia Islamia University, New Delhi, 110025, India
Abstract:
Background
Detection of DNA-binding sites in proteins is of enormous interest for technologies targeting gene regulation and manipulation. We have previously shown that a residue and its sequence neighbor information can be used to predict DNA-binding candidates in a protein sequence. This sequence-based prediction method is applicable even if no sequence homology with a previously known DNA-binding protein is observed. Here we implement a neural network based algorithm to utilize evolutionary information of amino acid sequences in terms of their position specific scoring matrices (PSSMs) for a better prediction of DNA-binding sites.