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The volumes of the binding sites of various TetR crystals range from 359 Å3 to 495 Å3 whereas the BOG binding site on the E protein is 481 Å3, according to the tool program, Q-SiteFinder [29] (the first column of Table S1).
Unresolved is how substrate acyl chains, in either configuration, enter lipid binding sites of various lipoxygenases.
First it creates CMepGs (which can serve as templates for methyl binding proteins), and second, it eliminates CUn-MepGs (which are the binding sites of various CXXC proteins).
ChIP-on-chip [ChIP (chromatin immunoprecipitation) using microarrays] [ 30, 31] is a key approach to globally mapping the in vivo binding sites of various DNA-binding proteins across genomes.
Transcriptional regulation of DR4 and DR5 is complex, and multiple potential binding sites of various transcription factors, including p53, are present in the upstream region of DR4 and DR5 [ 52].
Interestingly, different patterns of consensus binding sites of various transcription factors were also noted near the PPRE of genes that exhibited types I, II and III responses, but not for the other five response types.
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One suggested mechanism for this activity is the sumoylation of the receptor and recruitment of co-repressors on the promoter region of NF-κB-binding sites of various inflammatory genes (Pascual et al, 2005).
Using KSHV as a model in conjunction with ChIP-seq to interrogate the binding sites of the various SUMO paralogues during viral reactivation, we hoped to distinguish the epigenetic regulatory role of the SUMO isoforms during viral replication.
Cells transfected with luciferase reporter plasmids containing respective binding-sites of various transcriptional factors and Renilla-TK construct were seeded into 48-well plates.
Corresponding regions showed: (1) a greater abundance of polymorphic elements (mostly short interspersed element retrotransposons), and (2) significant enrichment for the motifs of binding sites for various transcription factors, with binding sites for the chromatin-organizing CCCTC-binding factor showing the greatest levels of enrichment in polymorphic short interspersed elements.
Inside there is a hydrophobic pocket which is the binding site of the various pocket factors and small antiviral compounds 9, 10.
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