It is well established that the conservation of protein structure during evolution constrains sequence divergence. The conservation of certain physicochemical environments to preserve protein folds and then the biological function originates a site-specific structurally constrained substitution pattern. However, protein native structure is not unique. It is known that the native state is better...

Avian pathogenic E. coli (APEC) is responsible for economic losses in all poultry farms. Certain virulence factors have been proposed as a means of controlling APEC infections, including some proteins to be used for vaccination. In the study we report here, one of the major virulence factors, the iss (increased serum survival) gene, from E. coli strain χ1378, isolated from poultry colibacillosi...

Cytochrome-c (cyt-c) is an electron transport protein, and it is present throughout the evolution. More than 280 sequences have been reported in the protein sequence database (www.uniprot.org). Though sequentially diverse, cyt-c has essentially retained its tertiary structure or fold. Thus a vast data set of varied sequences with retention of similar structure and fun...

among various practical measures used for restriction of the ground surface settlement in such tunnels driven in soft ground, selection of an appropriate excavation method plays a significant role. in this paper, employing suggested diagram by yu & chern, corresponding values of niayesh tunnel has been inserted into the diagram. later, two excavation methods namely: central diaphragm and si...

Protein sequence data is being generated at a tremendous rate; however, functional annotation of these proteins is proceeding at a much slower pace. Biologists rely on computational biology and pattern recognition to predict the functionality of proteins. This is based on the fact that proteins that share a similar function often exhibit conserved sequence patterns. Such sequence patterns, or m...

We describe a pattern-based conditional random field model for the prediction of dihedral angles an all-alpha protein from its primary structure. Such fields appear naturally in sequence labeling problems bioinformatics and can be considered relative to Hidden Markov Models. The learning parameters is done by structural SVM technique. accuracy that we achieved predicting angles, φ ψ, equals 22....

DNA sequence, containing all genetic traits is not a functional entity. Instead, it transfers to protein sequences by transcription and translation processes. This protein sequence takes on a 3D structure later, which is a functional unit and can manage biological interactions using the information encoded in DNA. Every life process one can figure is undertaken by proteins with specific functio...