We define functional brightness of a given protein as the full-length coverage with annotations of its close homologues, with 0% meaning dark and 100% meaning bright. We first computed the full-length coverage with annotations for all entries in all UniRef50 clusters, and considered a cluster ...
Some B-cell epitopes are conformational (as in VLPs), being formed by the juxtaposition in three-dimensional space of amino acid residues from different portions of the polypeptide, meaning that such epitopes require the full polypeptide for proper immunogenicity. In contrast, other peptide epitopes ...
meaning that after you analyze and annotate your protein sequence, you can immediately performprotein structure analysis, as well aspredict protein structure, performantibody modeling, or evaluateprotein-protein dockinginteractions. Use Protean 3D to have everything you need for comprehensive protein sequen...
Parameters for this type of scoring function are usually derived from both experimental data and ab initio quantum mechanical calculations. The major challenge for physics-based scoring functions is the treatment of the solvent in ligand binding. To overcome this limitation, implicit solvent approaches ...
As has been suggested earlier, the slow refolding of DM-MBP is thought to be due to the presence of an entropic barrier25 meaning that, in the absence of the hydrophobic core, a wide conformational search on a flat energy landscape needs to be performed. If this were the case, we should...
Yeast prions have several properties that, in principle, make them excellent candidates for building stable synthetic memory [225]. First, they exhibit bistability, meaning that a given cell can stably exist in either a [prion−] or [PRION+] phenotypic state. Second, cells can reversibly trans...
The proteins were subjected individually to interactome analysis using the STRING version 11.0 database (http://string-db.org) with the following parameters: meaning of network edges: confidence; active interaction sources: text mining, experiments, databases, co expression, neighborhood, gene fusion ...
Proteins are polymers, and yet the language used in describing their thermodynamics and kinetics is most often that of small molecules. Using the terminology and mathematical descriptions of small molecules impedes understanding why proteins have evolved to be big in comparison. Many properties of the...
Tα1, a neuron-specific microtubule protein, is expressed in the progenitor cells in retina and reaches its peak at one day after ONI, meaning that some stem cells start to produce new cells [125,126]. Krüppel-like factor 6a/7a (KLF6a/7a), a transcriptional factor binding to G/C-...
Unless defined otherwise herein, all technical and scientific terms used herein have the same meaning as commonly understood by one of ordinary skill in the art to which this invention belongs (See e.g., Singleton et al., DICTIONARY OF MICROBIOLOGY AND MOLECULAR BIOLOGY, 2D ED., John Wiley ...