The two undecanucleotides (11-mers) corresponding to the XerC and XerD binding sites were designated in this study as dif XerC and dif XerD, respectively, whereas the central hexanucleotide between the two Xer binding sites was named as dif cent (Figure 1A).
The compound site was named site 2 (Figs. 1A, B).
This site is named for the oppA, extracellular solute binding protein, and brnQ, branched chain amino acid transport protein, located here.
Chimeric att-sites were named using the format "WvW QR".
The dexamethasone binding site was the primary binding site in the GR for all organotins.
Next, binding sites rules are named with the direction and the related reaction rule id for further estimation of binding site covalence.
It has been shown that two putative ligand binding sites exist in SERT, named S1 and S2 [57 59], whereas a single substrate binding site is found in MAO-A [47].
It has been shown that the ctrA gene from R. prowazekii, named czcR, is able to complement the deletion of ctrA in Caulobacter, confirming that the functionality (that is, the binding site) is conserved between Rickettsia and Caulobacter [ 46].
Otherwise, this binding site is regarded as an incorrectly predicted binding site.
Information in these databases is limited: target and miRNA names are often ambiguous (ex. LIN-28B and Lin28 are both used to identify the same gene), and detailed information about the binding site is often missing.
