Strikingly, our inclusion-targeting strategy failed to reveal the presence of interacting sequences within domain 5, in spite that this domain has been previously shown to be an essential inclusion-forming player by orientating monomer-to-monomer interactions [11].
To define the consensus sequence, we compared cis elements previously identified as SBP box interacting sequences in Chlamydomonas reinhardtii[ 28, 29], Antirrhinum majus[ 30] and A. thaliana[ 5, 11, 31, 32] using WebLogo [ 33].
SG2000 (SJG-136, NSC694501) is a rationally designed pyrrolobenzodiazepine dimer which interacts sequence selectively in the minor groove of DNA [ 4, 5].
It brings Elba1 and Elba2 together by interacting with sequences in the N-terminal half of the two proteins.
This finding suggests that Elba3 orchestrates the formation of the hetero-tripartite complex by interacting with sequences in the N-terminal domains of Elba1 and Elba2.
Both Cuff and Rhi are enriched at the cluster 1/42AB, while they do not interact with sequences in the cluster 2 and flam.
We showed that HaDREB2 interacted with DRE sequences in the Hahsp17.6G1 promoter and that this interaction was required for synergistic transcriptional activation of Hahsp17.6G1 by HaDREB2 and HaHSFA9 in sunflower embryos [ 10].
Loaded DNA may also interact with specific sequences in the SMC, leading to closure of the entrance gate.
The identification of drug-like molecules from interacting peptide sequences in appropriate screening assays could lead to a significant extension of useful drug targets and the discovery of suitable lead compounds.
For example, PAN3 interacts with both the M2 and C-term regions of human TNRC6-SDs, whereas NOT1 interacts with tryptophan-containing sequences in the M1, M2 and C-term regions (Braun et al, 2011; Chekulaeva et al, 2011; Fabian et al, 2011; Huntzinger et al, 2013).
