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 pol
Protein secondary structure prediction: A survey of the state of the art 2.1 The description of protein secondary structure Among these four structural hierarchies, protein secondary structure plays an important role in protein science, and it is the primary fold of polypeptide chain and the ...
Dual quaternion model of protein secondary structure This section shows how dual quaternions can be efficiently used for the description of the secondary protein structure. First, we remind some basic fundamentals about proteins. Secondary structure is a part of the structural biology. Proteins are bio...
The commonly used protein coding is an orthogonal coding. As Zhou's [17] scheme, the 22-dimensional cod- ing vector is a sparse one-hot vector, only one of 22 elements is none-zero and a zero vector is no use for gra- dient optimization. Like description by [21], we adopted an ...
Changes in the structure can cause defects in these functions, which in some cases can result in the death of the cell and the organism. Thus, when investigating the effects of nanometre-sized materials on biological matter, the protein-nanoparticle interactions must be handled with priority. In...
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...
Antibodies with "(min X ... Sr Prot)" in the description have been tested and/or adsorbed against IgG and/or serum proteins of those species indicated in the parentheses. These products are recommended for reducing tissue background and for multiple labeling primary antibodies raised in different...
:: DESCRIPTION JPred is a Protein Secondary Structure Prediction server. JPred incorporates the Jnet algorithm in order to make more accurate predictions. In addition to protein secondary structure JPred also makes predictions on Solvent Accessibility and Coiled-coil regions (Lupas method). Advertisement...
a The protein domain structure of DICER. DExD helicase domain, DUF283: domain of an unknown function, PAZ: Piwi/Argonaut/Zwille, RIIIDa and RIIIDb: RNase III domains, and dsRBD: double-stranded RNA-binding domain. b Schematic of shRNA. The siRNA region is red, and the green arrowheads...
27 28 The use of explicit membrane has also been extended to numerous studies although 29 only when the protein structure is known. Since the dynamics is slower and the number of 30 atoms involved use to be larger than in isotropic fluids, therefore the simulations become 31 32 highly time ...