منابع مشابه
DBSI: DNA-binding site identifier
In this study, we present the DNA-Binding Site Identifier (DBSI), a new structure-based method for predicting protein interaction sites for DNA binding. DBSI was trained and validated on a data set of 263 proteins (TRAIN-263), tested on an independent set of protein-DNA complexes (TEST-206) and data sets of 29 unbound (APO-29) and 30 bound (HOLO-30) protein structures distinct from the training...
متن کاملInvestigation and Determination the Binding Site of Glycyrrhizin of Liquorice to DNA
Glycyrrhizin(GL), is a triterpenoid saponin found in glychyrrhiza glabra (liquorice). This compound is a frequently used and very effective drug for the treatment of various malignancies. This study was designed to examine the interactions of glycyrrhizin with calf thymus DNA in aqueous solution at physiological conditions. FTIR spectroscopic method was used to determine the ligand binding mode...
متن کاملA web server for transcription factor binding site prediction
UNLABELLED Promoter prediction has gained increased attention in studies related to transcriptional regulation of gene expression. We developed a web server named PMSearch (Poly Matrix Search) which utilizes Position Frequency Matrices (PFMs) to predict transcription factor binding sites (TFBSs) in DNA sequences. PMSearch takes PFMs (either user-defined or retrieved from local dataset which cur...
متن کاملSite-specific carcinogen binding to DNA.
Benzo[alpha]pyrene diol epoxide (BPDE) is a well-studied environmental carcinogen that binds covalently to DNA. Here we describe a photochemical technique that allows us to map BPDE-binding sites within cloned gene sequences. The technique is based upon our observation that, when irradiated with laser light at 355 nm, one single-strand DNA cut is produced at each BPDE binding site. In initial e...
متن کاملSite-Specific Binding of Proteins to DNA
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2016
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btw315