Sentence examples for binding site information in from inspiring English sources

Several methods employ the binding site information in order to generate molecules with a binding affinity toward a given target protein, e.g. Multiple Copy Simultaneous Search (MCSS) [57], SPROUT: structure generating software using template [58], and SMall Molecule Growth (SMoG) [59].

In order to transfer binding site information in the future, we need to translate the position on the original sequence to the updated sequence or make sure that ID mapping adds only identifiers representing the exact same sequence.

2. Y = Physical binding of TFs to target genes was predicted by the comparative TF family analysis; N = No physical binding of TFs was predicted; NA = no TF binding site information in AthaMap.

The detailed binding site information is shown in Additional File 7. I-TASSER and COACH are both user friendly webserver.

In addition, the binding site information of the target molecule and geometric information such as the occurrence of rotatable bonds should be reflected.

In particular,,,, are obtained by comparing the computed binding probabilities (of a sequence to have a binding site for a TF) with known binding site information from the test data set, that is, "0" (no binding site) and "1" (at least one binding site).

Another freely-accessible web server for binding site annotation GalaxySite [31] combines binding site information from known proteins with molecular docking to predict ligand binding amino acid residues.

As the results produced in this computation prediction tool do not provide predicted binding sites, binding site information is not available for import.

An annotated alignment, combining sequence and binding site information, 2.

In an effort to investigate the regulatory mechanism relating to the 326 up-regulated and 7 down-regulated genes associated with HRG treatment, the biological function of these genes was examined using two public data sources comprising the transcription factor binding site (TFBS) information in the UCSC genome browser database [20] and the KEGG pathway database [21].

Comparing to BLM-NII, RF and CS-PD model, it require crystal structure to extract local information (binding site) in FIM, which hinder the applying of FIM sometimes.