Binding sites (Biochemistry)
Functional analysis of transcription factor binding sites in human promoters
... TF binding sites that were functional in all four cell lines, 39 of which were associated with ubiquitous activation of transcription and 23 with ubiquitous repression (here, and throughout the remainder of ...
16
A blind deconvolution approach to high resolution mapping of transcription factor binding sites from ChIP seq data
... multiple binding sites at a single enriched region, we simply used MEME to search for conserved motifs that can occur arbitrarily many times around peaks in each enriched ...which binding ...
12
Genome Wide Mapping of Binding Sites Reveals Multiple Biological Functions of the Transcription Factor Cst6p in Saccharomyces cerevisiae
... Cst6p binding sites by ...the binding targets of Cst6p during growth on ...40 binding sites distributed on 14 chromosomes when the cells were grown in synthetic medium with ethanol as ...
10
Multiple high affinity binding sites for
... 5-HT binding sites in the Arctic charr brain, all showing high affinities for the endogenous ligand but differing affinities for the synthetic ligands, best illustrated by the three-site model found with ...
7
Insulin binding sites in various segments of the rabbit nephron
... target sites of this hormone in the nephron have not been ...hormone binding in discrete tubule segments we have determined the binding sites of 125I-insulin along the rabbit ...specific ...
6
Genome-wide Estrogen Receptor-α activation is sustained, not cyclical
... ER sites (Class A) and comparison to previously published ...for binding sites near the transcription start site of two well studied ER target genes, TFF1 and GREB1, gave a robust sustained response ...
13
Co regulation by Notch and Fos is required for cell fate specification of intermediate precursors during C elegans uterine development
... cis binding elements are required for egl-13 expression at cell specification and for rescue of egl-13 mutant ...factor binding sites within the ...Multi-protein binding factor; Y-box, Y-box ...
11
Protein ligand interactions: docking, design and protein conformational change
... the binding of small molecules to a protein requires an accurate description of the forces between them plus an accurate description of the changes in solvation that accompany ...potential binding ...
353
Stable enhancers are active in development, and fragile enhancers are associated with evolutionary adaptation
... that binding sites of different fam- ilies of TFs are enriched in fragile and stable ...TF binding sites is flexible and subject to loose distance, and only a subset of TFBSs are required to ...
17
Machine learning and genome annotation: a match meant to be?
... the binding sites of multiple TFs, that regulate a common gene nearby [47], such as cisacting promoters, enhan cers, silencers and ...TF binding motifs, evolutionary conser vation, direct ...
10
Identification and Characterization of Human Genomic Binding Sites for Retinoic Acid Receptor/Retinoid X Receptor Heterodimers
... RAREs are typically composed of two directrepeats of a core motif, RGKTCA [19]. The classical RARE is a 5 bp-spaced direct repeat (DR5). Furthermore, the heterodimers also bind to direct repeats separated by 1 bp (DR1) ...
15
Variable structure motifs for transcription factor binding sites
... For motif discovery our model is restricted to motifs that vary in length by one base at most. We target gapped PWMs that have a optional base near their cen- tres. We did not allow more than one optional base as ...
19
Variable structure motifs for transcription factor binding sites
... For motif discovery our model is restricted to motifs that vary in length by one base at most. We target gapped PWMs that have a optional base near their cen- tres. We did not allow more than one optional base as ...
20
CaMELS : In silicoprediction of calmodulin binding proteins and their binding sites
... dependent binding and the sequence diversity of Calmodulin (CaM) binding proteins, identifying CaM interactions and binding sites in the wet-lab is tedious and ...their binding ...
41
INSILICO ANALYSIS OF VINCA ALKALOIDS AS ANTIMITOTIC AND ANTI MICROTUBULE AGENTS: A POTENTIAL CURE FOR CANCER
... high-affinity binding sites in each microtubule that located at the ends of a ...microtubule. Binding of the vinca alkaloids to these sites interrupts microtubule congregation, but one of the ...
5
An overview of pharmacodynamic modelling, ligand binding approach and its application in clinical practice
... a binding system produce binding, particu- larly non-specific ...specific binding are outlined in Section 3.3. Binding does not always produce an effect; however, receptors are saturable ...
11
Comparative analysis between the protein mcp 1 and neurotrophins involved in alopecia areata
... Ligand binding site in Neurotrophins protein family PDB ID 1SG1 Three ligand binding sites were found in PDB ID 1DOK of protein MCP-1, out of which 1 was selected for further docking process, the ...
12
Structural and functional analysis of the solute binding protein UspC from Mycobacterium tuberculosis that is specific for amino sugars
... substrate binding cleft of UgpB and of GacH, a UspC homologue identified by structural similarity (electronic supplementary material, figure ...substrate binding cleft (figure 2b), may play a critical role ...
12
Adaptive Mutations in the V3 Loop of gp120 Enhance Fusogenicity of Human Immunodeficiency Virus Type 1 and Enable Use of a CCR5 Coreceptor That Lacks the Amino-Terminal Sulfated Region
... identify sites in gp120 that interact with the CCR5 coreceptor and to analyze the mechanisms of infection, we selected variants of the CCR5-dependent JRCSF molecular clone of human immunodeficiency virus type 1 ...
13
Polyelectrolyte Induced Metachromasy: Effect of Binding Sites
... two binding sites (Figures 11 and 12), namely carboxylate and sulphate groups, whilst sodium carboxy methyl cellulose contains only carboxylate ...Hence, binding between heparin Methylene Blue and is ...
8