It is known that some enzymes bearing a P-loop motif (Walker A motif) utilize GTP as a substrate instead of ATP (Saraste et al, 1990).
BtrN binds a single accessory [4Fe 4S] cluster, and the link between anSME and MoaA suggests that the SPASM/twitch subfamily may be a structural motif utilized more generally by approximately 16% of uncharacterized radical SAM enzymes that coordinate auxiliary Fe S clusters.
While the majority of proteins with a signal/hydrophobic sequence preceding the PEXEL/VTS motif may utilize a common export mechanism, the export of PfEMP1 appears to employ an alternative mechanism, which may be unique to P. falciparum.
Advances in unnatural amino acid incorporation into proteins have enabled the convenient functionalization of relevant proteins to a broad array of chemical and biochemical motifs utilizing azide alkyne cycloaddition, or "click" chemistry.
Gene expression data can also be used to discover DNA-binding motifs utilizing ab initio motif discovery from the promoters of sets of co-expressed genes (Roven and Bussemaker, 2003).
In addition, we searched for novel sequence motifs utilizing the whole data set without the need to dichotomize exons into AE and CE by applying the correlation-based method REDUCE [ 50] to the splice site proximal sequences and our exon-level score for measuring exon skipping (n = 83789).
A recent study shows that AR induces intronic binding sites in TMPRSS2 and ERG to facilitate specific chromosomal translocations by utilizing a common motif (TGT/AGGGA/T: break fusion site) for break/ligation in the human prostate cancer cell line LNCaP, which does not harbor TMPRSS2-ERG endogenously.
In addition, the D-subdomain interacts with the DNA sugar phosphate backbone of the duplex DNA upstream of the gap utilizing a second HhH motif.
The complexity of RNA's tertiary structure complicates de novo design of such nanostructures; however, by utilizing a predefined 3D motif as the design template many complications can be avoided.
To identify the motifs utilized for TR4 recruitment at the 346 TR4 binding sites that are also occupied by ELK4, we performed motif analysis using MEME.
We first describe common network motifs that underlie cellular adaptation and homeostasis; these motifs utilize negative feedback and incoherent feedforward loops.
