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The changes in the way the reducing end of the trisaccharide emerges from the binding site could have implications for target recognition in the larger context of tetrameric DC-SIGN interacting with glycans displayed on a membrane surface.
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We therefore wondered whether other topoisomerase II binding sites could have led to additional differences between the APO-SUS and -UNSUS rat genomes.
Because no homologous Rap2.4a binding sites could have been identified in the promoters of co-regulated genes (data not shown), it is assumed that the other antioxidant enzymes are indirectly co-regulated by a so far unknown mechanism.
Several groups had previously reported that mutations to the binding site could make the virus switch its preference from bird to human cells.
In principle, the several SNARE complexes present at a single fusion site could have different states of complexin- or synaptotagmin-binding.
Such repetitive occurrence of PUF binding sites may affect RNA regulation: different sites could have different affinities for PUF binding leading to dose-dependent or allosteric regulation.
These sites could have an important role in substrate recognition and/or binding.
We tested four (Gre3, Dfr1, Mdh1, Mdh3) NAD binding proteins for association with cellular RNA with RIP-Chip and found that all of them were reproducibly associated with mRNAs, proposing that their NAD binding sites could also have evolved to conduct some RNA regulatory functions.
The significance of this tight clustering is unclear at present, as these aa's have not been associated with known interactions, but this could form a new unidentified binding site that could have a critical role in telomere protection.
Intriguingly, the bioinformatics analysis also revealed the presence of miR-24-2 binding sites in BCL-2 and MDM2 mRNA besides having two binding sites in H2AFX mRNA, however, the binding site could not be identified in P21 mRNA.
This fortuitous binding site could later prove to be a useful binding site for other low molecular mass partners.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com