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C2-L1Tc may have binding preferences for specific conformations of the L1Tc RNA.
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H1 binding is not sequence specific; however, it shows binding preferences for certain DNA sequences.
Solomon, D.L., Amati, B. & Land, H. Distinct DNA binding preferences for the c-Myc/Max and Max/Max dimers.
Cutting-edge technologies have identified genomic DNA regulatory elements and revealed the binding preferences for many transcription factors.
Instead, we obtained informative DNA duplex stability prior by assuming different binding preferences for different TFs.
A list of RVDs and their binding preferences for nucleotides appears in Table 1.
By contrast, Lmd has a highly significant binding preference for loci of FCM-specific genes; 51% of known FCM-specific genes have an Lmd bound CRM and no Ttk69 binding in their vicinity compared with only 9% of FC-specific genes (Fig. 4H; supplementary material Table S5).
This also suggests that di-peptides are fairly promiscuous protein surface binders and may not offer a specific binding preference for the dimer interface site had the docking site definition been larger.
Moreover, RBPs are known that exhibit a specific binding preference for double-stranded RNA.
ET-743 binds to the minor groove of the DNA helix with sequence-specific binding preference for GC-rich triplets and subsequently forms covalent adducts with the N2-position of guanine.
We developed a robust pipeline to identify candidate "seed" regions that clearly showed a stronger binding pattern based on specific positions, restricting it to the 5' or 3' end and a binding preference for 3' UTRs.
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