Search NASA⌕ Search

SEARCH · Search NASA

Results for “G•U pair”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

Anionic G•U pairs in bacterial ribosomal rRNAs

Wobble GU pairs (or G•U) occur frequently within double-stranded RNA helices interspersed between standard G=C and A-U Watson–Crick pairs. Another type of G•U pair interacting via their Watson–Crick edges has been observed in the A site of ribosome structures between a modified U34 in the tRNA anticodon triplet and G + 3 in the mRNA. In such pairs, the electronic structure of the U is changed with a negative charge on N3(U), resulting in two H-bonds between N1(G)…O4(U) and N2(G)…N3(U). Here, we report that such pairs occur in other highly conserved positions in ribosomal RNAs of bacteria in the absence of U modification. An anionic cis Watson–Crick G•G pair is also observed and well conserved in the small subunit. These pairs are observed in tightly folded regions.

59 BASIC BIOLOGICAL SCIENCES↗

tRNA shape is an identity element for an archaeal pyrrolysyl-tRNA synthetase from the human gut

Protein translation is orchestrated through tRNA aminoacylation and ribosomal elongation. Among the highly conserved structure of tRNAs, they have distinguishing features which promote interaction with their cognate aminoacyl tRNA synthetase (aaRS). These key features are referred to as identity elements. In our study, we investigated the tRNA:aaRS pair that installs the 22nd amino acid, pyrrolysine (tRNAPyl:PylRS). Pyrrolysyl-tRNA synthetases (PylRSs) are naturally encoded in some archaeal and bacterial genomes to acylate tRNAPyl with pyrrolysine. Their large amino acid binding pocket and poor recognition of the tRNA anticodon have been instrumental in incorporating > 200 noncanonical amino acids. PylRS enzymes can be divided into three classes based on their genomic structure. Two classes contain both an N-terminal and C-terminal domain, however the third class (ΔpylSn) lacks the N-terminal domain. In this study we explored the tRNA identity elements for a ΔpylSn tRNAPyl from Candidatus Methanomethylophilus alvus which drives the orthogonality seen with its cognate PylRS (MaPylRS). From aminoacylation and translation assays we identified five key elements in ΔpylSn tRNAPyl necessary for MaPylRS activity. The absence of a base (position 8) and a G–U wobble pair (G28:U42) were found to affect the high-resolution structure of the tRNA, while molecular dynamic simulations led us to acknowledge the rigidity imparted from the G–C base pairs (G3:C70 and G5:C68).

59 BASIC BIOLOGICAL SCIENCES↗

Electromagnetic energy calibration of the SoLid detector with horizontal muons

SoLid is a neutrino experiment at very-short baselinesearching for active-to-sterile oscillations of reactorantineutrinos. The detection principle is based on the pairing oftwo types of solid scintillators: polyvinyl toluene and $^{6}$Li:ZnS(Ag), which is a new technology used in this field ofPhysics. In addition to good neutron-gamma discrimination, thissetup allows the detector to be highly segmented; the basicdetection unit is a 5 cm cube. High segmentation provides numerousadvantages including precise localisation of the Inverse Beta Decay(IBD) products, the derivation of an antineutrino energy estimatorbased on the isolated positron energy, and a powerful backgroundreduction tool that relies on the topological signature of thesignal. Finally, the system is read out by a network ofwavelength-shifting fibres coupled to photosensors. A relativeelectromagnetic calibration is performed with horizontal cosmicmuons. This source poses the simplest calibration problem in which asingle detection unit is involved. In addition, large muon energydeposits allow us to perform a calibration at the most detailedlevel (i.e. per fibre) and to accurately define the fraction ofenergy escaping to neighbouring detection cells. A statisticalprecision at the sub-percent level is reached. The paper alsodiscusses two methods to calibrate the absolute energy scale andpresents their implementation and results. The first method relieson horizontal muons, though the precision is limited to around 10%because of the uncertainty in the energy distribution of suchmuons. A novel, alternative method based on the radioactiveamericium-beryllium source is proposed. It takes advantage of theelectron-positron pair-production process and provides a calibrationpoint at 3.4 MeV (i.e. in the core of the IBD positronspectrum). The paper is concluded with various cross-check includinga determination of the energy spectrum of the standard cosmogenicbackground candle: $^{12}$B.

Abreu, Y. [Antwerp U.]↗