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Some legitimate ligands may indeed bind to the single structure selected, but in reality most receptor binding pockets have many valid conformational states, any one of which may be druggable.
PcrA from free solution can bind to the single strand at the rear of the train, thus propagating this effect.
To determine whether DSBs are formed in the Spo11 Gal/Gal mice we immunostained chromosomal spreads prepared from spermatocytes or oocytes with antibodies to the DMC1 protein, known to bind to the single stranded DNA tails of DSBs [ 29, 30].
DOI: http://dx.doi.org/10.7554/eLife.08407.005 Slit is the canonical ligand for Robo family receptors, and all three Drosophila Robos can bind to the single Drosophila Slit (Howitt et al., 2004).
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Binding of UP1 to this single-stranded deoxyoligonucleotide under Na+ buffer conditions is shown in Figure 4 and reveals UP1 to bind to the single-stranded DNA in a single event with a binding affinity of 4.1 × 10 M–1 and an enthalpy change (Δ H) of −37.0 kcal/mol and a stoichiometry of 2 1 (UP1 G-quadruplex strand).
Telomere proteins from ciliated protozoa bind to the single-stranded G-rich DNA extensions at the ends of macronuclear chromosomes.
1D polymerization was accomplished using 35 connector staples designed in such a way that every staple could bind to the single-stranded scaffold loop at the other end of the same helix.
In the 3'-untranslated region, complementary sites were not combined since miRNAs bind to the single-stranded RNA; thus there is a pool of 16,384 7-bp motif candidates.
For example the yeast Cdc13 and TEBPα from ciliates both bind to the single-stranded 3′-overhang and are homologous both in structure and function to the human POT1 (Baumann and Cech, 2001).
More importantly, if the small probes could specifically bind to the single-stranded T-DNA within Agrobacterium and be transferred to the host cell, T-DNA delivery can be monitored in a real-time format in the future.
The PCR inhibition by a dye, as characterized by a delay in Ct, is most likely due to the dye's interference with the chain extension step, where the dye may bind to the single-stranded template, thereby serving as "road bumps" to the extending primer-template complex.
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