Presents a brief illustrated taxonomy of those DNA-binding domains for which structural data are available and outlines how they bind to specific sites. Prokaryotic transcriptional regulatory proteins; The helix-turn-helix (HTH) motif; Zinc-binding domains; Beta-ribbon proteins; More....
Emerging viral infections are among the greatest challenges in the public health sector in the twenty-first century. Among these, most of the viruses jump
Finally, it has been noted that the α4–α5 Ras homodimer is consistent with binding of Ras effector domains to the surface on the opposite side of the protein from the homodimer interface51. Indeed, several of the crystals that contain the α4–α5 dimer also contain Ras binding partners...
The taxonomy of the genus Bacillus is determined by comparison of the sequences of 16SrRNA/DNA (Stackebrandt and Swidersky, 2002) but, where this method is unsatisfactory, classical methods such as morphology, biochemistry, physiology and chemotaxonomic traits are still used. The two groups of ...
It is involved in receptor binding and cell fusion and is a major inducer for neutralizing antibodies. The M protein is the most abundant structural glycoprotein, with three transmembrane domains that define the viral shape. The M protein can interact with all other structural proteins and thus ...
We generated multiple models per viral protein to account for possible conformational heterogeneity and variable modes of protein binding. The structural coverage ranges from 73% in (+)single-stranded RNA (ssRNA) viruses to 33% in double-stranded DNA (dsDNA)-RT (retro-transcribing) viruses (...
This technology can identify amino acids in protein antigens which are critical for antibody binding and, further, the definition of peptide motifs that are both structural and functional mimotopes of both protein and non-protein antigens [20, 21]. Several studies have reported the usefulness of ...
Recognizing the hierarchical structure of cell types is crucial for understanding cell function and interactions. However, the taxonomy or hierarchy is not often carefully considered during cell annotation. In recent years, a variety of methods and computational tools have been developed to identify cell...
DNA barcoding as a tool to facilitate the taxonomy of hermit crabs (Decapoda: Anomura: Paguroidea). J. Crust. Biol. 2018, 38, 780–793. [Google Scholar] [CrossRef] [Green Version] Takezaki, N.; Gojobori, T. Correct and incorrect vertebrate phylogenies obtained by the entire mitochondrial...
Interaction pattern analysis was used to evaluate the non-covalent interactions between the inhibitors and key residues in MurM’s binding pocket. Molecular dynamics simulations were performed over 300 ns to assess the structural stability and impact of these inhibitors on MurM’s enzyme. Results ...