Labeling oligomers

Figure 2. Chromatogram on a PA 100 column of the 2-aminopyridine-labeled oligomers from the EPG-resistant fragments after de-xylosylation with HF at -12 °C.

These low-temperature amide V IR and VCD isotope-edited results could be modeled with near-quantitative accuracy with DFT parameters by transferring ab initio FF, APT, and AAT parameters from computations for an a -helical heptapeptide model compound onto an o -helical 20-mer oligopeptide (Fig. 8 left). This simulation does not agree with data for the C-terminally labeled oligomer, because experimentally that end of... 

The donor-acceptor distance may not be unique, especially when the donor and acceptor are linked by a flexible chain (e.g. end-labeled oligomers of polymethylene or polyethylene oxide, oligopeptides, oligonucleotides, polymer chains). 

Subsequent to the description of the first minisatellite probes, it was determined that simple repeats, used in the form of labeled oligomers, could be used to reveal genetic variation in a number of organisms.25 A possible drawback to this method is that such oligomer probes, owing to... 

Fonr different supramolecular systems with differing numbers of base pair separations were then assembled by hybridization of the labeled oligomers, with the complementary 24-mer oligonucleotide previously coupled to the EYFP in the 5 -end yielded. The distances between the flu-orophores were calculated using a cylinder model of the DNA helix yielding 4.17, 5.38, 6.38, and 8.37 nm for the used separations of 0, 10, 17, and 24 bp, respectively. The experimental values for the ET efficiencies were in... 

In the vast majority of instances, the pyrene monomer fluorescence decays acquired with aqueous solutions of Py-WSPs, particularly when the pyrene labels are randomly incorporated into a WSP, are always multiexponential in nature. This experimental observation is a consequence of the distribution of distances between an excited pyrene and a ground-state pyrene or pyrene aggregate formed in water that leads to a distribution of rate constants for excimer formation by diffusion [30-32, 34]. Unfortunately, the analysis of multiexponential decays is notoriously difficult to handle and unless the decay times resulting from the photophysical processes are well resolved (i.e., separated by a factor of at least 2) as is the case for pyrene end-labeled short alkyl oligomers, the parameters retrieved from a triexponential fit should be considered with utmost caution [32]. Indeed early reports [38, 39] on the analysis of the fluorescence decays of Py-WSP based on the DMD model [40] or one of its variants introduced originally by Zachariasse to deal with the multiexponential decays of pyrene end-labeled oligomers yielded sets of parameters whose validity has been questioned [41]. 

Another approach that can be used to incorporate Ru(bpy)2 -type molecules into DNA oligomers is to chemically modify a cytidine or thymidine base with a linker arm terminating in a primary amine. This terminal amine functionality can then be selectively reacted with the -hydroxysuccinimide ester of 4 -carboxy-4 -methyl-2,2 -bipyridine to form bipyridine-labeled oligomers. These oligomers react with Ru(bpy)2(H20)2 to give covalently attached derivatives of the type... 

---