Hybridization-displaced charges for amino-acids: a new model using two point charges per atom along with bond-center charges

2010 ◽  
Vol 17 (6) ◽  
pp. 1435-1444 ◽  
Author(s):  
Neha Agnihotri ◽  
P. C. Mishra
Keyword(s):  
1962 ◽  
Vol 237 (1) ◽  
pp. 113-117 ◽  
Author(s):  
Hitoshi Akedo ◽  
Halvor N. Christensen
Keyword(s):  

Hypertension ◽  
2012 ◽  
Vol 60 (suppl_1) ◽  
Author(s):  
Jeremy W Prokop ◽  
Robson A Santos ◽  
Amy Milsted

The renin-angiotensin system is involved in multiple conditions ranging from cardiovascular disorders to cancer. The components of the pathway are targets for disease treatments including ACE inhibitors, renin inhibitors and AT1 blockers. However, very little is understood about the molecular mechanisms by which G-protein coupled receptors (GPCRs) are activated by angiotensin peptides. This study addresses three known receptors of the pathway: AT1, AT2, and MAS. Combining biochemical and amino acid variation data with multiple species sequence alignments, structural models, and docking site predictions allows for visualization of how angiotensin peptides may bind and activate the three receptors. It also addresses conserved and variant mechanisms among receptors. Models of each receptor align with a root mean squared deviation of less than 2.1Å with sequence conservation of 14-30% when comparing to another GPCR (rhodopsin), revealing amino acids required to maintain the seven helixes of the structure. This study reveals that MAS possibly differs in binding to angiotensin peptides, favoring a binding to Ang-(1-7) and not Ang II. Consensus amino acids 512 (Lys) and 621 (His), believed to interact with Phe 8 of Ang II are not conserved in MAS but amino acids (118, 233, 231, 268, 419, 719, and 725) predicted to interact with amino acids 1-7 of either Ang II or Ang-(1-7) are conserved. Analysis of MAS related proteins shown to be activated by Ang peptides reveals possible amino acids (114, 120, 318, 342, 426, 526, 527, and 720) that may contribute to homo or heterodimer formations with other membrane bound proteins, a possible mechanism of activation by the MAS receptor family. Finally a new model of Ang II binding and activation of AT1 and AT2 is proposed that correlates data from site directed mutagenesis and photolabled binding. The initial binding occurs between amino acids 512 and 621of either AT1 or AT2 with Phe 8 of Ang II. Then the Phe of Ang II shifts position via conserved aromatic amino acids to the final photolabled position relative to either AT1 (725) or AT2 (336). Our new model of Ang II-receptor interactions can be verified in future experiments to allow for a clear understanding of angiotensin peptide receptors and their interactions with other molecules.


2018 ◽  
Vol 9 (17) ◽  
pp. 4109-4117 ◽  
Author(s):  
Kate M. J. de Mattos-Shipley ◽  
Claudio Greco ◽  
David M. Heard ◽  
Gemma Hough ◽  
Nicholas P. Mulholland ◽  
...  

The cycloaspeptide gene cluster includes a pathway-specific N-methyl transferase. Its disruption allowed incorporation of N-methylated amino acids provided in the culture medium, allowing efficient production of cycloaspeptide E and novel related products.


1997 ◽  
Vol 161 ◽  
pp. 505-510
Author(s):  
Alexandra J. MacDermott ◽  
Laurence D. Barron ◽  
Andrè Brack ◽  
Thomas Buhse ◽  
John R. Cronin ◽  
...  

AbstractThe most characteristic hallmark of life is its homochirality: all biomolecules are usually of one hand, e.g. on Earth life uses only L-amino acids for protein synthesis and not their D mirror images. We therefore suggest that a search for extra-terrestrial life can be approached as a Search for Extra- Terrestrial Homochirality (SETH). The natural choice for a SETH instrument is optical rotation, and we describe a novel miniaturized space polarimeter, called the SETH Cigar, which could be used to detect optical rotation as the homochiral signature of life on other planets. Moving parts are avoided by replacing the normal rotating polarizer by multiple fixed polarizers at different angles as in the eye of the bee. We believe that homochirality may be found in the subsurface layers on Mars as a relic of extinct life, and on other solar system bodies as a sign of advanced pre-biotic chemistry. We discuss the chiral GC-MS planned for the Roland lander of the Rosetta mission to a comet and conclude with theories of the physical origin of homochirality.


1997 ◽  
Vol 161 ◽  
pp. 179-187
Author(s):  
Clifford N. Matthews ◽  
Rose A. Pesce-Rodriguez ◽  
Shirley A. Liebman

AbstractHydrogen cyanide polymers – heterogeneous solids ranging in color from yellow to orange to brown to black – may be among the organic macromolecules most readily formed within the Solar System. The non-volatile black crust of comet Halley, for example, as well as the extensive orangebrown streaks in the atmosphere of Jupiter, might consist largely of such polymers synthesized from HCN formed by photolysis of methane and ammonia, the color observed depending on the concentration of HCN involved. Laboratory studies of these ubiquitous compounds point to the presence of polyamidine structures synthesized directly from hydrogen cyanide. These would be converted by water to polypeptides which can be further hydrolyzed to α-amino acids. Black polymers and multimers with conjugated ladder structures derived from HCN could also be formed and might well be the source of the many nitrogen heterocycles, adenine included, observed after pyrolysis. The dark brown color arising from the impacts of comet P/Shoemaker-Levy 9 on Jupiter might therefore be mainly caused by the presence of HCN polymers, whether originally present, deposited by the impactor or synthesized directly from HCN. Spectroscopic detection of these predicted macromolecules and their hydrolytic and pyrolytic by-products would strengthen significantly the hypothesis that cyanide polymerization is a preferred pathway for prebiotic and extraterrestrial chemistry.


Author(s):  
H. Akabori ◽  
K. Nishiwaki ◽  
K. Yoneta

By improving the predecessor Model HS- 7 electron microscope for the purpose of easier operation, we have recently completed new Model HS-8 electron microscope featuring higher performance and ease of operation.


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