Sentence examples for based on secondary structure from inspiring English sources
We have calculated three different types of Cis: two based on primary structure conservation, CiUniv and Ci1ry; one based on secondary structure conservation, Ci2ry; and a composite Ci which combined the information obtained from the other three, CiTot.
Rosetta comparative modeling protocol [ 72] uses a secondary structure profile of the query sequence, customized three- and nine- amino acid long peptide fragments based on secondary structure prediction of the query sequence from the structural database, a multiple sequence alignment file and a structural template to build the tertiary models of the query sequence.
The ribosomal genes were aligned based on secondary structure information using RNAsalsa v0.8.1 [ 97] with Apis mellifera structural data used as a constraint.
In [ 29], the authors presented a random forest-based method to predict the SCOP class, fold, superfamily and family levels based on secondary structure element descriptors that achieved precisions of up to 99.0%.
The truncated TRAM constructs were designed based on secondary structure predictions and screened by small-scale expression.
In addition, matching the rates of transcription and translation based on secondary structure may lead to enhanced protein folding.
Tertiary constraints were determined by identifying peaks from analyzed data that were (1) distinguishable from the local background signal by unbiased inspection and (2) not attributable to secondary structure, based on secondary structures inferred by M (Kladwang et al., 2011a).
We applied a variety of alignment tools, including masking (Aliscore [ 17]) and refinement algorithms based on secondary structures (RNAsalsa [ 18]) and applied compartmentalised analyses of taxon clusters causing obvious alignment problems.
The I-TASSER server uses a hierarchical protein-structure modelling approach based on secondary-structure enhanced profile-profile threading alignment and iterative implementation of the threading assembly refinement program [ 68].
Classes based mainly on secondary structure content and organization.
Second, we compare ANGOR with a more challenging predictor based only on secondary structure predictions.
