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To adapt this stringent template preference and allow replication of foreign RNAs, pEGX216, a universal mutagenesis vector was constructed based around a small multi-cloning site (MCS) inserted into a modified RQ 135-1 sequence.
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Tsutsui et al. (2003) suggested this polarity in aggressive behavior results from an asymmetry in genetic diversity; ants from colonies with low genetic diversity have fewer recognition cues and a more stringent recognition template making them more likely to initiate attacks than ants with a wide array of cues.
While this emphasis on stringent sequence similarity between template and query domain instances in transferring interaction results in significant improvement on prediction performance, it also draws attention to the large sequence variation among domain instances which may limit conventional DDI-based approaches.
Herein, we built so far the largest database of bound templates with stringent quality control.
This had to be expected since we use rather stringent parameters to select the template (E-value better than 10 − 5, template coverage >90%, X-ray resolution <2.5 Å or solved by the NMR).
Firstly, the reaction was conducted in order to facilitate the RNase H1 primer to hybridize to the conserved RNase H domain of the template under the stringent conditions.
For each pair (A i, B i) of query domain instances that meets the stringent alignment threshold to a template interacting domain instance pair (A, B), we infer the interaction interface residues in (A i, B i) as the residues that are aligned to the interaction interface residues in (A, B).
SWIFT and its adjunct programs have been optimized to detect very rare populations, and the templating strategy allows stringent comparisons between large numbers of samples.
We also found a high number of such false positive hypometabolic clusters when using an adult template, at a threshold stringent for such an individual SPM analysis [12].
The interactions between query domain instances are made based on very stringent sequence alignment to the structural template domain instances.
bSiteFinder as a protein-binding sites prediction server was developed based on the largest database of bound templates so far with stringent quality control.
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