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Using terminal protection of small molecule-linked DNA chimeras, which can protect DNA from degradation by various exonucleases when the small molecule moieties are bound to their protein target, we designed a loop probe, where the 3′-end was modified with biotin to resist digestion by exonucleases in the presence of target SA.
Motion of this sort has been suggested as a possible means by which lipid moieties are bound for transport [12], and it is thus assumed that such motion is not an indication of loss of structure, but rather a native dynamics of this protein.
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Finally, no similar bioisostere was found among the results obtained with SwissBioisostere for BoBER's bioisostere of fragment 3 in which an acidic moiety is bound to a furan ring.
In the resultant ThyX-NADP+ binary complex, the AMP moiety is bound in a deep pocket similar to that of the same moiety of FAD in the ternary complex, while the nicotinamide part of NADP+ is engaged in a limited number of contacts with ThyX.
204LPMFHVAAL212 residues show homology to the 9-residue gate motif (G-motif), which in homologous proteins interact with the residues of the C- terminal domain after the AMP moiety is bound to the protein and thus keeps the enzyme in the closed conformation required for catalysis [23].
NO-ASA consists of traditional ASA to which an NO-releasing moiety is bound via a spacer.
The phosphate moiety is bound in a positively charged pocket formed by pol λ residues Arg275, Arg308, and Lys312.
The C-terminus of ubiquitin is able to form covalent bonds with other proteins and once a single ubiquitin moiety is bound, it can be conjugated with additional ubiquitin molecules in a process called poly-ubiquitination [ 12, 13].
On the other hand, the methylpiperidine moiety is bound to the nitrogen of the indole, and the ion at m/ z 98 is observed as the base peak (Fig. 3d).
Recent evidence suggests that only one Hsp90 moiety is bound by Sti1 at any given point in time; the other Hsp90 may interact with a different co-chaperone (Li et al., 2011).
A pendant 5,6-dimethylbenzimidazole (DMB) base attached to the corrin macrocycle by an intramolecular loop occupies the "lower" (Coα) axial position, while an ATP-derived 5′-deoxyadenosyl moiety is bound to the Co ion in the upper (Coβ) position via a unique organometallic bond.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com