Author
Raja Dey
Other affiliations: Chalmers University of Technology, University of Calcutta, University of Connecticut ...read more
Bio: Raja Dey is an academic researcher from University of Minnesota. The author has contributed to research in topics: Ring (chemistry) & Binding site. The author has an hindex of 15, co-authored 34 publications receiving 973 citations. Previous affiliations of Raja Dey include Chalmers University of Technology & University of Calcutta.
Papers
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TL;DR: In this review, what is known about the regulation, signaling, and physiological functions of G-proteins are summarized and a few less explored areas such as the regulation ofG- Proteins by non-GPCRs and the physiological functions that cannot be easily explained by the known G-protein signaling pathways are focused on.
300 citations
TL;DR: Nanomaterials are materials in the nanorange 1-100nm which possess unique optical, magnetic, and electrical properties as discussed by the authors, and they have been modified for a wide range of cancer therapies to overcome toxicity and lack of specificity.
Abstract: Cancer is a disease with complex pathological process. Current chemotherapy faces problems such as lack of specificity, cytotoxicity, induction of multi-drug resistance and stem-like cells growth. Nanomaterials are materials in the nanorange 1–100 nm which possess unique optical, magnetic, and electrical properties. Nanomaterials used in cancer therapy can be classified into several main categories. Targeting cancer cells, tumor microenvironment, and immune system, these nanomaterials have been modified for a wide range of cancer therapies to overcome toxicity and lack of specificity, enhance drug capacity as well as bioavailability. Although the number of studies has been increasing, the number of approved nano-drugs has not increased much over the years. To better improve clinical translation, further research is needed for targeted drug delivery by nano-carriers to reduce toxicity, enhance permeability and retention effects, and minimize the shielding effect of protein corona. This review summarizes novel nanomaterials fabricated in research and clinical use, discusses current limitations and obstacles that hinder the translation from research to clinical use, and provides suggestions for more efficient adoption of nanomaterials in cancer therapy.
237 citations
TL;DR: This review focuses on biomedical applications of nanoscale assemblies, such as cell targeting, drug delivery, bioimaging and vaccine development, and the use of virus-like particles and self-assembling polypeptide nanoparticles as new vaccine delivery platforms.
Abstract: Nanoscale assemblies are a unique class of materials, which can be synthesized from inorganic, polymeric or biological building blocks. The multitude of applications of this class of materials ranges from solar and electrical to uses in food, cosmetics and medicine. In this review, we initially highlight characteristic features of polymeric nanoscale assemblies as well as those built from biological units (lipids, nucleic acids and proteins). We give special consideration to protein nanoassemblies found in nature such as ferritin protein cages, bacterial microcompartments and vaults found in eukaryotic cells and designed protein nanoassemblies, such as peptide nanofibres and peptide nanotubes. Next, we focus on biomedical applications of these nanoscale assemblies, such as cell targeting, drug delivery, bioimaging and vaccine development. In the vaccine development section, we report in more detail the use of virus-like particles and self-assembling polypeptide nanoparticles as new vaccine delivery platforms.
125 citations
TL;DR: Comparison with previously reported structures of p53 dimer:DNA complexes and a chemically trapped p53 tetramer:DNA complex reveals that DNA binding by the p53 core domain is a cooperative self-assembling process accompanied by structural changes of the p 53 dimer and DNA.
123 citations
TL;DR: Three crystal structures of the full DNA-binding domain (DBD) of human GATA3 protein, which contains both zinc fingers, in complex with different DNA sites are determined, providing insights into the structure and function of GATA proteins and shed light on the molecular basis of long-range gene regulation.
97 citations
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TL;DR: The helical propensity modification is tested using the benchmark proteins hen egg-white lysozyme, fox1 RNA binding domain, chorismate mutase and the GCN4-p1 peptide and good agreement with a range of primary experimental data is obtained.
Abstract: New parameter sets of the GROMOS biomolecular force field, 54A7 and 54B7, are introduced. These parameter sets summarise some previously published force field modifications: The 53A6 helical propensities are corrected through new φ/ψ torsional angle terms and a modification of the N-H, C=O repulsion, a new atom type for a charged -CH(3) in the choline moiety is added, the Na(+) and Cl(-) ions are modified to reproduce the free energy of hydration, and additional improper torsional angle types for free energy calculations involving a chirality change are introduced. The new helical propensity modification is tested using the benchmark proteins hen egg-white lysozyme, fox1 RNA binding domain, chorismate mutase and the GCN4-p1 peptide. The stability of the proteins is improved in comparison with the 53A6 force field, and good agreement with a range of primary experimental data is obtained.
1,782 citations
TL;DR: The state of the art in the field of antimicrobial polymeric systems during the last decade is described in this paper, where a classification of the different materials is carried out dividing basically those synthetic polymers that exhibit antimicrobial activity by themselves; those whose biocidal activity is conferred through their chemical modification; those that incorporate antimicrobial organic compounds with either low or high molecular weight; and those that involve the addition of active inorganic systems.
1,063 citations
TL;DR: Structural views have been complemented with data from high-throughput in vitro and in vivo explorations of the DNA-binding preferences of many TFs to expand the understanding of TF-DNA interactions.
448 citations
TL;DR: The structural evolution of the p53 pathway is traced, from germ-line surveillance in simple multicellular organisms to its pluripotential role in humans, and some of these compounds have now moved from proof-of-concept studies into clinical trials, with prospects for further, personalized anticancer medicines.
Abstract: Inactivation of the transcription factor p53, through either direct mutation or aberrations in one of its many regulatory pathways, is a hallmark of virtually every tumor. In recent years, screening for p53 activators and a better understanding of the molecular mechanisms of oncogenic perturbations of p53 function have opened up a host of novel avenues for therapeutic intervention in cancer: from the structure-guided design of chemical chaperones to restore the function of conformationally unstable p53 cancer mutants, to the development of potent antagonists of the negative regulators MDM2 and MDMX and other modulators of the p53 pathway for the treatment of cancers with wild-type p53. Some of these compounds have now moved from proof-of-concept studies into clinical trials, with prospects for further, personalized anticancer medicines. We trace the structural evolution of the p53 pathway, from germ-line surveillance in simple multicellular organisms to its pluripotential role in humans.
434 citations