background: mushroom tyrosinase a potent candidate in clinical studies known as polyphenol oxidase, is a metaloenzyme from the oxidase superfamily widely distributed from lower to higher life forms. it plays a crucial role in sclerotization of exoskeleton in insects, also responsible for skin pigmentation in mammalians. objective: in this study, after reconstitution of mt by some metal ions, th...

Accurate prediction of protein secondary structure is an important step in understanding protein folding. Most of the knowledge of the secondary structure of proteins comes from the X-ray diiraction patterns of crystallized proteins. However, these crystallographic analyses are very expensive, laborious and time consuming. An alternative is to use the known structures to predict the secondary s...

Secondary structure (SS) refers to the local spatial organization of a polypeptide backbone atoms of a protein. Accurate prediction of SS can provide crucial features to form the next higher level of 3D structure of a protein accurately. SS has three different major components, helix (H), beta (E) and coil (C). Most of the SS predictors express imbalanced accuracies by claiming higher predictio...

Modeling protein flexibility is a long standing challenge in computational biology with a special impact to protein docking. Relating problems are protein structures alignment and identification of flexible and rigid protein regions, as well as a general definition of a region degree of flexibility. Determination of protein flexibility from a single protein conformation, so called apriori appro...

In the wake of large-scale DNA sequencing projects, accurate tools are needed to predict protein structures. The problem of predicting protein structure from DNA sequence remains fundamentally unsolved even after more than three decades of intensive research. In this paper, fundamental theory of the protein structure will be presented as a general guide to protein secondary structure prediction...

RNA secondary structure prediction is an important problem studied extensively in the past three dacades. However, pseudoknots are usually excluded in RNA secondary structure prediction due to the hardness of examining all possible structures efficiently and model the energy correctly. Current algorithms on predicting structures with pseudoknots usually have extremely high resource requirements...

SUMMARY The defined secondary structure of proteins method is often considered the gold standard for assignment of secondary structure from three-dimensional coordinates. However, there are alternative methods. '2Struc: The Secondary Structure Server' has been created as a single point of access for eight different secondary structure assignment methods. It has been designed to enable compariso...

Acknowledgement First of all, I would like to humbly express my profound gratitude to my supervisor Dr. Md Tamjidul Hoque for being so kind, enduring and at the same time vigilant in every aspect of my research and academic progress during the whole time I have been here at University of New Orleans. He has been tireless to explain every nuances again and again till I felt little uncomfortable ...

The Vienna RNA secondary structure server provides a web interface to the most frequently used functions of the Vienna RNA software package for the analysis of RNA secondary structures. It currently offers prediction of secondary structure from a single sequence, prediction of the consensus secondary structure for a set of aligned sequences and the design of sequences that will fold into a pred...