Classification of representative clades were based primarily on the classifications for related sequences reported previously [9][59] but also on the bootstrapping values (>70%) for distinguished branch lengths.
These pairs of proteins were identified by an all-against-all comparison of SCOP (Structural Classification of Proteins) representatives and the similar binding site residues identified in each protein pair can be superimposed with low RMSD.
These results would contrast with those based on HCA results overlooking ties, which bring a possible classification of many, therefore representative descriptors of not so valid classes of descriptors.
Taxonomic classification of the OTU-representative sequences to phylum level highlighted that Actinobacteria, Bacteroidetes, and Proteobacteria largely dominate the barley rhizosphere and root communities, where 88% and 96% of the pyrosequencing reads, respectively, were assigned to these three phyla.
It includes a basic text-based introduction to plant classification, a checklist of representative Idaho plants hyperlinked to species description pages, a bibliography, and a link to the site glossary (not plant-specific).
Analysis of these final two alignments enabled classification of the SM protein representatives from these divergent taxa.
We choose pairs of structural classification of proteins (SCOP) domain representatives that are confident homologs but do not have a strong structure similarity.
To assess whether use of a single voided specimen for classification of proteinuria was sufficiently representative, we estimated the rate of persistent proteinuria in patients with micro- or macroalbuminuria and at least one additional albumin excretion measurement during the time window of this cohort.
Such wrong family assignments might reduce reliability of the classification and the selection of representative seed dataset.
Here we briefly review a few representative examples and suggest a functional classification of different types of loop structures.
