The initial list included a total of 69 candidate direct targets (79 binding sites) and included the gene name, species, type of site (as described in the literature), binding site sequence (as described in the literature), position within the gene, activation/repression, competing elements or cofactors, tissues/cells, experiments performed, locus link number, OMIM link and Jackson lab ID.
This zone is located above the putative substrate-binding site and includes residues that contribute to the P4-interacting motif (P4IM) (Persson, C., et al., unpublished data).
This allows us to model the uncertainty in actual binding site location–experimental methods may not precisely locate a binding site, and may include a region that is larger than the true binding site due to limitations of budget and experimental procedures.
Satisfyingly, nine of the ten residues affected by the disease lie very close to the AMP/ATP binding sites, and six (including four basic residues, R302, H383, R384, and R531, human γ2 numbering) make direct contact with the nucleotides.
We identified regulatory elements proximal to AhR binding sites, and this included recognition sites for the transcription factors ETS, SP1, CREB, EGR, NF-kB, NKXH, and ZBP.
This model of DAT in the occluded state (termed here S1-DAT) is based on the LeuT template [15] and the characterization of the Cl− binding site [42], and includes in the S1 site one dopamine (DA) substrate molecule, two Na+ and one Cl− ions.
A common insertion point lies close to the distal ubiquitin binding site and was proposed to include an autoinhibitory UBL domain in hUSP4.
The late reverse transcript primer set spans the reverse transcription primer binding site and amplifies all cDNA forms including complete linear cDNA, 1LTR and 2LTR circles, and integrated provirus [28].
Importantly, the typical binding mode (including the binding site and coordination number) of Cu II) and Fe III) with RuCn at the interface was clarified.
The macrolide peloruside A shared many of the same properties of laulimalide, including its binding site and synergistic effects with the taxanes [ 203].
