Alcohol and nicotine consumption exacerbates choroidal neovascularization by modulating the regulation of complement system

The objective of the present study was to investigate the effect of alcohol and nicotine consumption on the pathogenesis of choroidal neovascularization (CNV) in rats after laser-photocoagulation. Confocal microscopic analysis demonstrated an increase in CNV complex size in rats fed with alcohol (2.3-fold), nicotine (1.9-fold), and the combination of alcohol and nicotine (2.7-fold) compared with the control groups. Immunohistochemical analysis revealed that alcohol and nicotine consumption increased MAC deposition and VEGF expression in laser spots. Expression of CD59 by RT-PCR and Western blot was drastically reduced in the animals that were fed with alcohol, nicotine and alcohol and nicotine compared to those fed with water alone and this was associated with exacerbation of CNV.     

A search for radioresistance in experimental populations of Drosophila with radiation histories

Human lymphocytes in the G₀ stage were irradiated with UV light and X-rays. A 2-fold increase in the yield of dicentrics was observed in comparison with the yield for X-rays alone. This synergistic effect was constant irrespective of the variation in the UV dose between 50 and 100 erg/mm².The individual chromosomes participated in interchange aberrations as expected from a random distribution per mitotic chromosome length unit. This observation is in contrast with the recent finding that X-ray-induced chromosome-type breakage is preferentially located on chromosomes with relatively large amounts of R-bands. Thus, the present data indicate that the additional breakage points, due to the synergism, had a different distribution between chromosomes from those induced by X-irradiation alone. Mechanisms that could account for the synergistic reaction are discussed.     

Design of 1-arylsulfamido-2-alkylpiperazine derivatives as secreted PLA<Subscript>2</Subscript> inhibitors

Structure and analog based analysis of 3D-QSAR, CoMFA and CoMSIA, along with different docking protocols were used to evaluate the structure activity relationship of 26 analogues of 1-aryl sulfamido-2-alkyl piperazines to model the activities of group I and II secreted phospholipases A₂ (sPLA₂s) and probe into the chemical space and nature of receptor — ligand interactions. The best CoMFA model yields cross-validated (q²) and conventional correlation coefficients (r²) of 0.703 and 0.962 respectively whereas CoMSIA model yields q² and r² values of 0.408 and 0.922 respectively, followed by docking analysis using FlexX and GOLD methodologies on the X-ray structure of human and bovine PLA₂s. A comparative study was made to find out the differences in the active site residues of both PLA₂s. The information enunciated from the analysis of CoMFA and CoMSIA maps and docking results were analyzed and employed in the design of 29 new ligands using molecules 4, 21, 22 from the initial set as templates. New ligands for group I and II secreted phospholipases A₂ (sPLA₂s) have been thus designed based on the 32 analogues of 1-aryl sulfamido-2-alkyl piperazine with a cursory note on its synthetic feasibility. Molecular modeling studies indicate that the newly designed ligands are expected to show high affinity and experimental efforts in this direction is highly rewarding.     

Specificity Rendering ‘Hot-Spots’ for Aurora Kinase Inhibitor Design: The Role of Non-Covalent Interactions and Conformational Transitions

The present study examines the conformational transitions occurring among the major structural motifs of Aurora kinase (AK) concomitant with the DFG-flip and deciphers the role of non-covalent interactions in rendering specificity. Multiple sequence alignment, docking and structural analysis of a repertoire of 56 crystal structures of AK from Protein Data Bank (PDB) has been carried out. The crystal structures were systematically categorized based on the conformational disposition of the DFG-loop [in (D_I) 42, out (D_O) 5 and out-up (D_OU) 9], G-loop [extended (G_E) 53 and folded (G_F) 3] and αC-helix [in (C_I) 42 and out (C_O) 14]. The overlapping subsets on categorization show the inter-dependency among structural motifs. Therefore, the four distinct possibilities a) 2W1C (D_I, C_I, G_E) b) 3E5A (D_I, C_I, G_F) c) 3DJ6 (D_I, C_O, G_F) d) 3UNZ (D_OU, C_O, G_F) along with their co-crystals and apo-forms were subjected to molecular dynamics simulations of 40 ns each to evaluate the variations of individual residues and their impact on forming interactions. The non-covalent interactions formed by the 157 AK co-crystals with different regions of the binding site were initially studied with the docked complexes and structure interaction fingerprints. The frequency of the most prominent interactions was gauged in the AK inhibitors from PDB and the four representative conformations during 40 ns. Based on this study, seven major non-covalent interactions and their complementary sites in AK capable of rendering specificity have been prioritized for the design of different classes of inhibitors.     

Structure of the mammalian 80S ribosome at 8.7 A resolution

In this paper, we present a structure of the mammalian ribosome determined at approximately 8.7 A resolution by electron cryomicroscopy and single-particle methods. A model of the ribosome was created by docking homology models of subunit rRNAs and conserved proteins into the density map. We then modeled expansion segments in the subunit rRNAs and found unclaimed density for approximately 20 proteins. In general, many conserved proteins and novel proteins interact with expansion segments to form an integrated framework that may stabilize the mature ribosome. Our structure provides a snapshot of the mammalian ribosome at the beginning of translation and lends support to current models in which large movements of the small subunit and L1 stalk occur during tRNA translocation. Finally, details are presented for intersubunit bridges that are specific to the eukaryotic ribosome. We suggest that these bridges may help reset the conformation of the ribosome to prepare for the next cycle of chain elongation.