In this work, we propose a network-based approach to cluster the protein pockets into similar groups in a database level. A pocket similarity network is constructed to describe structural similarity relationships among the pockets from the systematic perspective, which possesses the community structures and can can be utilized to develop a direct method to cluster the pockets by partitioning th...

Research of protein is pivotal to the drug discovery, since most of the drugs act upon proteins inside human body. Drugs act when they are close to the concave portions, so called “pockets”, of protein surfaces. Therefore, detection and analysis of the pockets are also important for the drug discovery. This paper presents a fast pocket extraction and evaluation technique for protein surfaces. S...

Molecular surfaces of proteins and other bio-molecules, while modeled as smooth analytic interfaces separating the molecule from solvent, often contain a number of pockets, holes and interconnected tunnels, aka molecular features in contact with the solvent. Several of these molecular features are biochemically significant as pockets are often active sites for ligand binding or enzymatic reacti...

In This Issue In This Issue RB pockets the cell cycle idely used cancer therapies inflict collateral damage on normal dividing cells. But now Lohez et al. (page 67) find a way to distinguish normally cycling cells from cancer cells using actin inhibitors that cause an RB-dependent cell cycle arrest. High levels of actin inhibitors prevent cell cleavage and thus lead to a doubling of cellular DN...

A characterization of the bacterial community of the hindgut wall of two larval and the adult stages of the forest cockchafer (Melolontha hippocastani) was carried out using amplicon sequencing of the 16S rRNA gene fragment. We found that, in second-instar larvae, Caulobacteraceae and Pseudomonadaceae showed the highest relative abundances, while in third-instar larvae, the dominant families we...

BACKGROUND Periodontal disease or periodontitis is an inflammatory disease with a hight prevalence. According to the last oral health survey of the Spanish population, between 24% and 37% of Spaniards aged over 35 years have periodontitis and 6% to 10% of the adult population have deep periodontal pockets. The aim of this study was to determine the association between risk factors and the prese...