Sentence examples for by backbone alignment to from inspiring English sources
These conformations served as starting positions for further docking, each time selecting a peptide with similar or better ICM docking score and a superior binding conformation by backbone alignment to the known GSK3β peptide conformation.
First, the HTS reads are aligned to a backbone alignment [ 71, 72], subsequently each query sequence is placed into a backbone tree [ 73] using an extended alignment, and finally taxonomy is assigned to each read using a phylogenetic placement approach, such as the Lowest Common Ancestor (LCA) [ 74].
Neighbor-joining trees were produced to identify those sequences in the Greengenes backbone alignment that were most similar to the reads from our samples.
The resulting sequences were aligned in ARB (Ludwig et al. 2004) to a backbone alignment from the Greengenes 16S rRNA database (http://greengenes.lbl.gov) (DeSantis et al. 2006).
Next, a peptide backbone alignment was performed on the three co-binding peptides present in addition to superimposition of bound abacavir from the three crystals.
Performing a peptide backbone alignment revealed that the 3D-structure of the peptide backbone was highly conserved [44].
We have also compared the two interfaces based on inhibitor backbone alignment.
Intergenic regions were covered by backbone probes to maintain baseline stability between genes.
All 43 polymorphic sites in the backbone alignment and the single polymorphic site in the tRNA Thr-4 prophage were initially checked by comparison with pre-existing Sanger trace files available from NCBI for isolates J0161, J2818 and F6854.
X-ray co-crystal structures were solved for all the compounds 14– 17 bound to importin-α with resolution in the range of 2.0 2.6 Å showing the resultant changes in lysine position and backbone alignment.
