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p53 binding sites in transposons [PDF]
Frontiers in Genetics, 2012 Repeated regions of the genome harbor more functional information than commonly assumed. Two decades ago, a highly influential paper describing the consensus binding site for the key transcription factor p53 was published in Nature Genetics by el-Deiry et al. (1992). Recently, it has been observed that many p53 binding sites are species-specific (Jegga
Tomasz eZemojtel, Martin eVingron
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Adaptive evolution of transcription factor binding sites [PDF]
BMC Evolutionary Biology, 2004 Background The regulation of a gene depends on the binding of transcription factors to specific sites located in the regulatory region of the gene. The generation of these binding sites and of cooperativity between them are essential building blocks in ...
Berg Johannes +2 more
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In Silico Analysis of miRNA-mRNA Binding Sites in Arabidopsis thaliana as a Model for Drought-Tolerant Plants [PDF]
PlantsDrought stress limits plant survival and yield in arid regions. Uncovering the molecular mechanisms of drought tolerance is key to developing resilient crops.
Yryszhan Zhakypbek +9 more
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Locating ligand binding sites in G-protein coupled receptors using combined information from docking and sequence conservation [PDF]
PeerJ, 2021 GPCRs (G-protein coupled receptors) are the largest family of drug targets and share a conserved structure. Binding sites are unknown for many important GPCR ligands due to the difficulties of GPCR recombinant expression, biochemistry, and ...
Ashley Ryan Vidad +2 more
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Inferring binding energies from selected binding sites. [PDF]
PLoS Computational Biology, 2009 We employ a biophysical model that accounts for the non-linear relationship between binding energy and the statistics of selected binding sites. The model includes the chemical potential of the transcription factor, non-specific binding affinity of the ...
Yue Zhao, David Granas, Gary D Stormo
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Binding sites analyser (BiSA): software for genomic binding sites archiving and overlap analysis. [PDF]
PLoS ONE, 2014 Genome-wide mapping of transcription factor binding and histone modification reveals complex patterns of interactions. Identifying overlaps in binding patterns by different factors is a major objective of genomic studies, but existing methods to archive ...
Matloob Khushi +3 more
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Galactoside-Binding Site in LacY [PDF]
Biochemistry, 2014 Although an X-ray crystal structure of lactose permease (LacY) has been presented with bound galactopyranoside, neither the sugar nor the residues ligating the sugar can be identified with precision at ~3.5 Å. Therefore, additional evidence is important for identifying side chains likely to be involved in binding.
Jiang, Xiaoxu +4 more
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Toxins, 2021 Cobra venoms contain three-finger toxins (TFT) including α-neurotoxins efficiently binding nicotinic acetylcholine receptors (nAChRs). As shown recently, several TFTs block GABAA receptors (GABAARs) with different efficacy, an important role of the TFTs ...
Lina Son +7 more
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Computing the protein binding sites [PDF]
BMC Bioinformatics, 2011 Identifying the location of binding sites on proteins is of fundamental importance for a wide range of applications including molecular docking, de novo drug design, structure identification and comparison of functional sites. Structural genomic projects are beginning to produce protein structures with unknown functions.
Lusheng Wang, Fei Guo, Fei Guo
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Frontiers in Bioengineering and Biotechnology, 2022 Albumin-based cryogels for capturing haemin were synthesised by crosslinking different biomolecules, bovine serum albumin (BSA) and ovalbumin (OVA). The impact of the protein and coupling agent concentrations on cryogel’s mechanical properties, swelling ...
Solmaz Hajizadeh +2 more
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