Using structural motif descriptors for sequence-based binding site prediction
نویسندگان
چکیده
منابع مشابه
Prediction and analysis of nucleotide-binding residues using sequence and sequence-derived structural descriptors
MOTIVATION Nucleotides are multifunctional molecules that are essential for numerous biological processes. They serve as sources for chemical energy, participate in the cellular signaling and they are involved in the enzymatic reactions. The knowledge of the nucleotide-protein interactions helps with annotation of protein functions and finds applications in drug design. RESULTS We propose a n...
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Objective(s): β-thalassemia is one of the most common genetic disorders in the world. As one of the promising treatment strategies, fetal hemoglobin (Hb F) can be induced. The present study was an attempt to reactivate the γ-globin gene by introducing a gene construct containing KLF1 binding sites to the K562 cell line. Materials and Methods: A plasmid containing a 192 bp sequence with two repe...
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Determination of binding affinity of proteins in the formation of protein complexes requires sophisticated, expensive and time-consuming experimentation which can be replaced with computational methods. Most computational prediction techniques require protein structures which limit their applicability to protein complexes with known structures. In this work, we explore sequence based protein bi...
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Many protein sequences are still poorly annotated. Functional characterization of a protein often is improved by the identification of novel interaction partners. Here, we aim to create descriptors for all relevant sequence parts of structurally known protein-protein and protein-ligand binding sites. These binding sites are often well-conserved (1). In contrast, the rest of the surface seems to...
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As the full genomic DNA sequence is now available for several organisms, a major next challenge is determining the function of DNA elements. This task is often referred to as functional genomics. An important part of functional genomics is gene regulation, and particularly the binding of specific proteins called Transcription Factors (TFs) to DNA. This TF binding regulates the production of mRN...
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ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2007
ISSN: 1471-2105
DOI: 10.1186/1471-2105-8-s4-s5