Sentence examples for models of conserved from inspiring English sources

The 'Toolbox' also provides models of conserved domains for proteins, derived from the Conserved Domains source of the NCBI database, and the putative secondary-structure models of the proteins from ModBase: the Database of Comparative Protein Structure Models (http://modbase.compbio.ucsf.edu/modbase-cgi/index.cgi).

The models of conserved amino acid sequences of WRKY domain and zinc-finger structure in four groups were shown in Additional file 2: Figure S2.

Oikopleura genes were identified by both Hidden Markov Model (HMM) searches (HMMER 3.0, http://hmmer.org/) in predicted O. dioica protein database in NCBI using respective PFAM models of conserved domains, and by BLAST searches in the Oikopleura genome (sequenced to 14X coverage) and EST (about 300,000) databases.

The data suggest that Tribolium may conserve more common miRNAs with other insects than with Drosophila and may therefore represent a more ancestral model of conserved miRNA function.

We also constructed a hidden Markov model of conserved features using the program HMMER 2.3.2 [ 66] and used the output consensus sequence in an additional blast search.

The ability of models to conserve structure was measured by the percentage of sequences which recognized correctly (Z-score > 2.7) the LβH fold.

A second, similar approach to assessing how well V. destructor genes were represented in the assembly was to query all predicted ORFs against the CEGMA set of hidden Markov models of evolutionarily conserved proteins [ 42].

34, 50 In homology modeling, the template structure of conserved amino acids in the two sequences will be enforced on the model of the target protein (see below) and therefore a receptor structure with high homology but in a different conformational state can be less suitable as a template than a structure with lower sequence homology.

Marsupials provide an ideal model for the identification of conserved mammalian gene features since they diverged from mice and humans over 130 million years ago [ 36].

Consequently, comparative studies of neuropeptide signaling in bilaterians would benefit from marine models with a rich set of conserved pNPs.

We have performed simulations to verify the capabilities of our model to conserve momentum and energy, accurately calculate the axial constraint forces along the thread for haptic feedback, and capture bending-torsion coupling leading to the formation of plectonemes.