However, in our bioinformatics analyses, these two binding motifs are not among the most representative sequences in GBRs of glucocorticoid-repressed genes.
Nevertheless, little information about putative physical interactions was provided since actual binding or occurrence of binding motifs was not included.
The isolation of surrogates containing generic RNA binding motifs is not unexpected and probably results from enhanced binding and concomitant enrichment of these peptides during the panning process.
However, computational identification of RNA substrates based on conserved binding motifs is not straightforward because in addition to the sequence context structural features of the RNA are relevant.
These previously identified NAC binding sequences including their core binding motifs are not present within the identified ATAF2 binding sequence, suggesting that ATAF2 recognizes a binding sequence different from that used by other NAC proteins.
Even though it has been suggested that human USP17 subfamily members are homologous to murine DUB subfamily members due to the fact that they are cytokine-inducible and regulate cell growth and survival [ 20], hyaluronan and RNA binding motifs are not found in members of murine DUB subfamily (data not shown).
A comparison of the sequences revealed no consensus sequence between the 12 selected peptides suggesting that the lipid A binding motif is not sequence specific which is in accord with the sequence variation seen with the naturally occurring anti-microbial and/or endotoxin binding peptides.
The protoplast in vivo analysis revealed that the binding of OsSMF1 alone to the binding motif was not sufficient to self activate the OsSMF1 transcription factor (data not shown).
Compared with synthetic compounds, natural products are secondary metabolite, evolutionarily optimized with biologically relevant chemical space and preferred ligand binding motif, are not only biologically active, but with a high degree of bioavailability, suitable for functional and phenotypic assays [86].
Thus, diversity in the C-terminal plasminogen binding motif was not responsible for the observed differences in plasminogen activation.
