Sentence examples for binding sites were aligned from inspiring English sources

All identified regulator binding sites were aligned and used for refinement of a binding site motif, building of an updated PWM, and final regulon reconstruction.

A set of predicted DtxR binding sites was aligned by means of the CLUSTAL X program [ 21], and the resulting alignment was used to create a HMM by using the HMMBUILD module.

To search for SXL-binding sites in the EST database, every EST containing a binding site was aligned with other ESTs from the same CLOT (a group of homologous ESTs as defined by BDGP); some CLOTs contained too many EST sequences to be aligned, and were skipped.

The results presented here suggest that the barnase-barstar binding sites are correctly aligned during the transition state even at diminishing electrostatic attraction, although specific short range interactions of uncharged residues are not yet formed.

The resulting 21 putative FUR binding site sequences were aligned using Weblogo 3.0 [ 64] to create the optimized A. baumannii FUR motif.

Two binding sites were considered distinct if their seed region loci in the multiply aligned 3'UTR sequences were different.

Conserved binding sites were determined by using the DiAlign TF program (Genomatix) and by searching for common Lef1/Tcf sites occurring at the same position in (aligned) orthologous promoter sequences of each Wnt/β-catenin target gene.

As the similar binding sites are overlaid, the co-crystallized ligands are aligned and are therefore a starting material for ligand hybridization.

Identification of potential transcription factor binding sites was done by eye from aligned sequences, using previously identified consensus binding sites for transcription factors with known involvement in opsin gene regulation [ 70- 72].

The primary sequence alignment of ecotin and the L. major ISPs shows that the amino acids of these secondary binding sites are highly conserved between the aligned sequences (Fig. 1B).

However, to increase sensitivity and the amount of polymorphism available for analysis, we did not require the binding sites to be aligned but just that they appear anywhere in each orthologous 3' UTR.