A coarse-grained geometrical model for protein secondary-structure description and analysis is presented which uses only the positions of the C± atoms. A space curve connecting these positions by piecewise polynomial interpolation is constructed and the folding of the protein backbone is described by ...
The Protein profiles where used instead of the amino acids residues. For a more detailed description of the dataset and for download see[4]. In a first phase of research the whole amino acid sequence was used as an example (700 x 22) to predict the whole secondary structure (label) (700...
secondary structure (redirected fromsecondary structures) Medical Encyclopedia Related to secondary structures:tertiary structures n. The three-dimensional structure of the polypeptide backbone of a protein (such as alpha helix, beta sheet, and coil patterns), or the sugar-phosphate backbone of a nuclei...
Structure Database (PSSD) is a database that incorporates sequences of secondary structure elements of all proteins which their three dimensional structures are defined by experimental methods such as NMR-Spectroscopy or X-Ray Crystallography and their structural data exists in Brookhaven protein data...
The accuracy of this method has been checked onto an updated release of the Kabsch & Sander database which comprises 239 protein chains. This new method correctly predicts more than 69% of amino acids for a 3-states description of the secondary structure (/spl alpha/ helix, /spl beta/ ...
This improved SOPM method (SOPMA) correctly predicts 69.5% of amino acids for a three-state description of the secondary structure (α-helix, β-sheet and coil) in a whole database containing 126 chains of non-homologous (less than 25% identity) proteins. Joint prediction with SOPMA and a...
In the same way, 3 states may over-simplify the description of protein structure; 50% of all residues, i.e., the coil, are not described even it encompass precise local protein structures. Description of local protein structures have hence focused on the elaboration of complete sets of small...
versions. In Supplementary Note 1, we provide a comprehensive description of the web server, including the user interface and output, a complete description of the methodology underlying BGC detection and chemical structure prediction, and the approaches taken to extend structure prediction to additional...
protein structure were modeled with Prime in the Schrödinger software. The systems were solvated with TIP3P waters, with the box size as 7.8 nm × 7.8 nm × 7.8 nm. In all, 150 mM NaCl were added to the systems to mimic the biological environments. Then the ...
(Figure 10.22). These different cuts are used for different purposes in the wood industry and influence thefigure, or general appearance of the wood. The three cuts are also used by wood anatomists to view the cells from three different directions, often necessary for precise description or ...