Binding Site
A systems biology approach to transcription factor binding site prediction.
... Here, we show that a significant improvement in TFBS discovery can be achieved by using an integrative work-flow approach we call OmniMiner. First, we use ARACNe, a proven reverse-engineering algorithm [23,24,25,26], to ...
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pMD-Membrane: A Method for Ligand Binding Site Identification in Membrane-Bound Proteins.
... ligand binding sites for which there exist crystallographic or solution NMR structures of K-Ras in complex with ligands ...membrane binding mode 1 (Fig 4A), pocket p1 is completely ...putative site ...
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Comprehensive human transcription factor binding site map for combinatory binding motifs discovery.
... The first category is composed of algorithms [10] that work on small sequence fragments. Initially developed for predicting TFBMs from co-expressed gene clusters determined by transcrip- tomics experiments, and also used ...
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Ribosome binding site recognition using neural networks
... Ribosome Binding Site (RBS) is one of those important signals for the identifica- tion of genes in a DNA sequence, since almost every bacte- rial mRNA (messenger RNA) has an RBS, to the polypeptidical ...
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Binding-site assessment by virtual fragment screening.
... allosteric binding site spatially distinct from the ATP catalytic pocket is induced upon binding to a diaryl urea type of ...ATP binding pocket and the allosteric site, including the ...
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Multiple ETS family proteins regulate PF4 gene expression by binding to the same ETS binding site.
... same site and regulate gene ...for binding to the same ...same site? In the coexpression assay, FLI-1 but not ELF-1 and GABP synergistically activated the PF4 promoter with GATA-1 (Figure ...GATA-1 ...
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A novel human polycomb binding site acts as a functional polycomb response element in Drosophila.
... SUZ12 binding at both SLC and A3 regions decreased significantly in the SUZ12 knockdown cells ...The binding of PRC1 proteins BMI1 and RING1B were also significantly reduced, consistent with the idea that ...
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Identification of a novel negative retinoic acid responsive element in the promoter of the human matrix Gla protein gene
... vitro binding studies show that RAR yRXR and cyEBPb do not physically interact on the ...for binding to a common binding ...common binding site as a mechanism for the RA-mediated ...
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Characterization of the Effect of Drug-Drug Interaction on Protein Binding in Concurrent Administration of Sulfamethoxazol and Diclofenac Sodium Using Bovine Serum Albumin
... Drug-protein binding means the formation of plasma protein complex with drug after reaching the ...warfarin binding site, the benzodiazepine-binding site and the digoxin binding ...
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Ansamitocin P3 depolymerizes microtubules and induces apoptosis by binding to tubulin at the vinblastine site.
... The binding of ansamitocin P3 induced conformational changes in ...vinblastine binding site on tubulin in two different ...the binding of ansamitocin P3 to tubulin is stabilized by hydrogen ...
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Insights into the N-Sulfation Mechanism: Molecular Dynamics Simulations of the N-Sulfotransferase Domain of Ndst1 and Mutants
... glycan binding cleft, where His716 is ...substrate-binding site could play a role in modulating the dynamics of the substrate-binding pockets ...
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Avaliação do efeito protetor da Frutose-1,6-bisfosfato na sepse induzida por Candida albicans em camundongos
... 16 binding protein (C/EBP) and nuclear factor kappa B (NF-kappa B) binding site resulted in an 17 important decrease in reporter gene activity and a deletion of NF-kappa B and C/EBP with mutation 18 ...
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J. Braz. Chem. Soc. vol.23 número7
... the binding site and the binding mode remained essentially the same during these stages of the ...intercalative binding (see Figure 4C, ...
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Ligação do domínio Ets de ESE-3 à sequência de DNA contendo as bases centrais 5 -GGAX-3 (X= A ou T) : análises cinéticas e em equilíbrio estimadas por ressonância plasmônica de superfície
... ESE-3 binding to Drosophila E74 gene promoter sequence (a consensus Ets binding site) containing either 5’-GGAA-3’ or 5’-GGAT- 3’core ...equilibrium binding affinity between Ets domain ESE-3 ...
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Virtual and biophysical screening targeting the γ-tubulin complex--a new target for the inhibition of microtubule nucleation.
... Physiological or pathological processes are mainly controlled by protein–protein interactions (PPIs) [1,2], which constitute a promising but difficult pharmacological target in many diseases. Analysis of the interface ...
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Interaction of Diocleinae Lectins with Glycoproteins Based in Surface Plasmon Resonance
... carbohydrate-binding site of lectins which allows these proteins to specifically recog- nize oligosaccharides and complex ...charide-binding site, other neighbouring residues located at the ...
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Functional Domains of the Bacillus subtilis Transcription Factor AraR and Identification of Amino Acids Important for Nucleoprotein Complex Assembly and Effector Binding†
... sugar binding and response or in DNA binding are dominant over the wild-type allele in ...arabinose-binding site of AraR between the two C subdomains in the effector- binding cleft ...
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Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations.
... 11. Binding of human AGPAT1 gene and human HNF4A protein occurs. 12. Binding of human HNF4A protein and human ITGA9 gene ...13. Binding of human HNF4A protein and human PLD2 gene ...AP-1 site ...
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Molecular mechanism of strict substrate specificity of an extradiol dioxygenase, DesB, derived from Sphingobium sp. SYK-6.
... binding site. The importance of this interaction in the substrate binding is suggested by the structural comparison of the DesB (WT)-gallate, DesB-PCA and DesB (His124Phe)-gallate complexes (Figures ...
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STAT1 interacts with RXRα to upregulate ApoCII gene expression in macrophages.
... STAT binding site in the 2500/2493 region of apoCII ...STAT1 binding site in the 59 region of the ...RXR binding sites are present, although they are located at different ...
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