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One current view asserts that recurrent RNA strand segments with characteristic backbone configurations qualify as independent motifs.
Other considerations indicate that, to characterize modular motifs, one must take into account the larger structural context of such strand segments.
The inhibition was caused by gp2-mediated decrease of the RNAP binding affinity to template and non-template strand segments of the transcription bubble downstream of the − 10 promoter element.
Here, by testing shRNAs and siRNAs of various GC content in different guide strand segments with reporter assays, we establish that weak base pairing in both seed and 3' regions is required to achieve minimal off-targeting while maintaining the intended on-target activity.
Grouping strands forming β-sheet: all strand segments are extracted from a given assignment.
However, manually examining many cases where the methods differ, we find that most disagreements appear at the ends of various (helical or strand) segments.
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Deletion of the entire ® strand segment proposed to insert into the membrane (residues 302 325) resulted in a mutant, the "loopless" mutant, that was incapable of permeablizing the membrane.
For the strand segment, the vector is the least-square line fitting its Cα atoms.
In this test case, our system reported a structure with one double strand segment and a hairpin.
Examining the lengths of various secondary structural segments, we observe that the average length of a helix and strand segment assigned by SST is 12.1 and 6.1 residues, respectively.
(D ) Schematic showing how the single-stranded DNA-binding groove of the Cdc45 RecJ-like domain could facilitate the capture of a leading strand segment if the Mcm5-2 DNA gate were to transiently open.
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