We determined subnanometer-resolution cryo-electron microscopy structures of eukaryotic ribosome-Sec61 complexes. (cipsm.de)
Furthermore, our cryo-electron microscopy (cryo-EM) structure of the 50S·ObgE·GMPPNP complex indicates that the evolutionarily conserved N-terminal domain (NTD) of ObgE is a tRNA structural mimic, with specific interactions with peptidyl-transferase center, displaying a marked resemblance to Class I release factors. (rcsb.org)
Here we present the structure of the Bbu 70S ribosome obtained by single particle cryo-electron microscopy at 2.9 Å resolution, revealing a bound hibernation promotion factor protein and two genetically non-annotated ribosomal proteins bS22 and bL38. (bvsalud.org)
We determined the structure of the Bbu 70S ribosome by single particle cryo-electron microscopy (cryo-EM) at a resolution of 2.9 Å, revealing its distinctive features. (bvsalud.org)
Our group uses structural biochemical techniques, primarily macromolecular crystallography (MX) and single-particle cryo-electron microscopy (cryoEM), to elucidate 3D structures of RNPs or their components. (fu-berlin.de)
Proteins10
Plastid-specific ribosomal proteins (PSRPs) have been proposed to play roles in the light-dependent regulation of chloroplast translation. (cipsm.de)
Each subunit consists of one or more ribosomal RNA (rRNA) molecules and many ribosomal proteins (RPs or r-proteins). (wikipedia.org)
It is largely made up of specialized RNA known as ribosomal RNA (rRNA) as well as dozens of distinct proteins (the exact number varies slightly between species). (wikipedia.org)
The ribosomal proteins and rRNAs are arranged into two distinct ribosomal pieces of different sizes, known generally as the large and small subunit of the ribosome. (wikipedia.org)
The protein bL37, previously seen only in mycobacterial ribosomes, is replaced by an N-terminal α-helical extension of uL30, suggesting that the two bacterial ribosomal proteins uL30 and bL37 may have evolved from one longer uL30 protein. (bvsalud.org)
A new system for naming ribosomal proteins. (scripps.edu)
Overview of electron crystallography of membrane proteins: crystallization and screening strategies using negative stain electron microscopy. (janelia.org)
Electron cryomicroscopy, or cryoEM, is an emerging technique for studying the three-dimensional structures of proteins and large macromolecular machines. (janelia.org)
Electron crystallography is a branch of cryoEM in which structures of proteins can be studied at resolutions that rival those achieved by X-ray crystallography. (janelia.org)
Here we demonstrate that PSRP1 is not a bona fide ribosomal protein, but rather a functional homologue of the Escherichia coli cold-shock protein pY. (cipsm.de)
The Obg protein in Escherichia coli (ObgE) has been implicated in many diverse cellular functions, with proposed molecular roles in two global processes, ribosome assembly and stringent response. (rcsb.org)
The ribosomal protein uL30 in Bbu has an N-terminal α-helical extension, partly resembling the mycobacterial bL37 protein, suggesting evolution of bL37 and a shorter uL30 from a longer uL30 protein. (bvsalud.org)
In contrast to a previous study suggesting that the single hibernation promoting factor protein present in Bbu (bbHPF) may not bind to its ribosome, our structure reveals a clear density for bbHPF bound to the decoding center of the small ribosomal 30S subunit. (bvsalud.org)
The 30S subunit has a non-annotated ribosomal protein, bS22, that has been found only in mycobacteria and Bacteroidetes so far. (bvsalud.org)
The protein bL38, recently discovered in Bacteroidetes, is also present in the Bbu large 50S ribosomal subunit. (bvsalud.org)
Here, we build large, intact carboxysome shells (over 90 nm in diameter) in the industrial microorganism Escherichia coli by expressing a set of carboxysome protein-encoding genes. (nature.com)
Here we report the structure of a bacterial nitrate/nitrite transport protein, NarK, from Escherichia coli, with and without substrate. (janelia.org)
Electron crystallography employs two-dimensional crystals of a membrane protein embedded within a lipid bilayer. (janelia.org)
The key to a successful electron crystallographic experiment is the crystallization, or reconstitution, of the protein of interest. (janelia.org)
Functionally, the mutations decrease IRES activity by inhibiting the first ribosomal translocation event, and modeling results suggest that this effect occurs through an interaction with a single ribosomal protein. (janelia.org)
Here we show that in cells depleted of the SRP protein, Ffh or the translocon component SecE, the ribosomal targeting pathway is blocked downstream and unprecedented, membrane-bound FtsY-ribosomal complexes are captured. (rupress.org)
Bacterial4
Crystal structure of the bacterial ribosome from escherichia coli in complex with the antibiotic kasugamyin at 3.5A resolution. (bgsu.edu)
Crystal structure of the bacterial ribosome from Escherichia coli in complex with neomycin. (bgsu.edu)
Modular Assembly of the Bacterial Large Ribosomal Subunit. (scripps.edu)
Light and electron microscopy of the pathogen treated with the bacterial isolates showed the inhibition of spore germination with initial malformation of germ tubes and later formation of circle-like vesicles with no hyphal growth and hyphal disruption sometimes accompanied by hyphal swellings and shrinkages adjacent to the bacteria, suggesting their antibiotic mode of antagonistic activity. (ppjonline.org)
Ribosomes4
Ribosomes consist of two major components: the small and large ribosomal subunits. (wikipedia.org)
Ribosomes are ribozymes, because the catalytic peptidyl transferase activity that links amino acids together is performed by the ribosomal RNA. (wikipedia.org)
Ribosomes were first observed in the mid-1950s by Romanian-American cell biologist George Emil Palade, using an electron microscope, as dense particles or granules. (wikipedia.org)
We propose that in the absence of a functional SRP or translocon, ribosomes remain jammed at their primary membrane docking site, whereas FtsY-dependent ribosomal targeting to the membrane continues. (rupress.org)
CryoEM1
High resolution structure determination by electron cryo-microscopy (cryoEM) and Single Particle Analysis (SPA) has progressed to the point where structures can be determined routinely to better than 2Å on a 300 kV microscope. (jeolusa.com)
Macromolecules3
These eigenvector/ei- genvalue data-compression approaches were first introduced to electron microscopy (EM) in 1980 to help sort out different views of macromolecules in a micrograph. (scirp.org)
Electron tomography of single particles had been proposed by Hoppe and his co-workers [8] , however, due to the radiation-sensitivity of biological macromolecules to electrons, it is not feasible to expose a biological molecule to the dose required to reveal the 3D structure from one hundred different projection images of the same molecule. (scirp.org)
Micro electron diffraction, or microED, is a technique aimed at solving structures of biological macromolecules by electron diffraction. (jeolusa.com)
Microscope3
The electron microscope (EM) instrument, initially developed by Ernst Ruska in the early nineteen thirties [1] , became a routine scientific instrument during the nineteen fifties and sixties. (scirp.org)
lt;p>MicroED can be applied on every new electron microscope in the JEOL TEM line-up. (jeolusa.com)
The sizes of synthesized as measured by transmission electron microscope of ZnO-NPs were 88 and 65 nm for chemical and green methods, respectively. (ppjonline.org)
RNAs2
Arkov, A. L. & Murgola, E. J. Ribosomal RNAs in translation termination: facts and hypothesis. (nature.com)
The nuclear ribosomal repeats for the 18S, 5.8S, and 26S RNAs of two closely related Picea (spruce) species were characterized by restriction mapping and Southern blot hybridization. (lookformedical.com)
Bacteria1
In this study, the anti-biofilm activity of previously fabricated polyamino-phenolic ligands and polyamidoamine dendrimers was investigated against legionella mono-species and multi-species biofilms formed by L. pneumophila in association with other bacteria that can be found in tap water ( Aeromonas hydrophila , Pseudomonas aeruginosa , Escherichia coli , Klebsiella pneumoniae ). (frontiersin.org)
Crystallography2
With the rapid progress and improvements in the fields of macromolecular crystallography, Cryo-EM, small angle scattering, electron diffraction and use of XFELs, the new LINXS theme INTEGRATIVE STRUCTURAL BIOLOGY is formed to advance cutting-edge research and to encourage new users to utilize integrative structure biology to address key scientific questions. (lu.se)
The first symposium, which is the kick-off event for the new LINXS theme, will focus on advanced, cutting-edge research in the fields of macromolecular crystallography, Cryo-EM, small angle scattering, electron diffraction, mass-spectroscopy, NMR, and use of XFELs etc. (lu.se)
Diffraction1
Graphene oxide, copper and alumina nanoparticles used in this study were characterized using Raman spectroscopy measurements through excitation with a He-Ne laser, while powder X-ray diffraction patterns were taken on a PANanalytical, X'Pert HighScore diffractometer and the morphology of the materials was confirmed using high-resolution transmission electron microscopy (HRTEM). (springer.com)
Genomes2
In this study we designed a set of PCR primers for the mitochondrial 12S ribosomal DNA sequence based on 64 complete mitochondrial genomes and then tested their efficacy. (lookformedical.com)
Alignment of sequences was performed for the excised mitochondrial 12S ribosomal DNA sequences, and conserved regions were identified for all 64 mitochondrial genomes. (lookformedical.com)
Termination2
Seit-Nebi, A., Frolova, L., Justesen, J. & Kisselev, L. Class-1 translation termination factors: invariant GGQ minidomain is essential for release activity and ribosomal binding but not for stop codon recognition. (nature.com)
RNP-based processive anti-termination underlies the switching from immediate-early to delayed-early gene expression in other lambdoid phages as well as ribosomal RNA synthesis in Escherichia coli . (fu-berlin.de)
Gene2
Unlike microbial studies, where analysis of the 16S ribosomal DNA sequence is standard, the best gene for metazoan metagenetics is less clear. (lookformedical.com)
Using 16S ribosomal RNA gene amplicon sequencing and metagenomics, we resolved the microbial community composition on the North and South Shelves of Iceland, analyzed its evolution from 2011 to 2018, identified frequently occurring taxa, and predicted their potential metabolism. (matis.is)
SUMMARY: An Hfr strain G11 and an F − strain D1 of Escherichia coli K 12 both containing the R-factor R 1a were treated with ethyl methane sulphonate (EMS). (microbiologyresearch.org)
Downstream2
Here, using pre-steady state fast kinetics we demonstrate that ObgE is an anti-association factor, which prevents ribosomal subunit association and downstream steps in translation by binding to the 50S subunit. (rcsb.org)
In this paper, we measured the response of Escherichia coli treated with aminoglycosides and discovered that the bactericidal action arises not from the downstream effects of voltage-dependent drug uptake, but rather directly from dysregulated membrane potential. (elifesciences.org)
Organism1
This study compares the results of aerobic culturing and molecular testing (culture-free 16S ribosomal DNA sequencing), and it examines the relative abundance score that is generated by the molecular test and the usefulness of the relative abundance score in predicting the likelihood that the same organism would be detected by culture. (lookformedical.com)
Transmission1
Transmission electron microscopy results indicated that the formation of endocuticle and exocuticle was blocked. (biomedcentral.com)
Centre1
This process is terminated when a stop codon moves into the ribosomal decoding centre (DC) and is recognized by a class-1 release factor (RF). (nature.com)
Structure2
The cryo-EM structure of the Rsh-bound 70S ribosome in a translation initiation complex reveals unknown interactions between the ACT domain of Rsh and components of the ribosomal L7/L12 stalk base, suggesting that the aminoacylation status of A-site tRNA is surveilled during the first cycle of elongation. (bvsalud.org)
Vol 63: Ribosomal DNA Sequence Heterogeneity Reflects Intraspecies Phylogenies and Predicts Genome Structure in Two Contrasting. (lookformedical.com)
Atomic1
A method based on atomic force microscopy is used to delineate the properties that determine single-molecule adhesion onto solid substrates in aqueous environment. (cipsm.de)
Zavialov, A. V., Buckingham, R. H. & Ehrenberg, M. A posttermination ribosomal complex is the guanine nucleotide exchange factor for peptide release factor RF3. (nature.com)
Crystals1
However, it differs in a fundamental way in that electrons are used, which, owing to the substantially larger scattering cross-section of electrons with biological matter, means much smaller crystals can be used. (jeolusa.com)
Analysis1
A combined quantitative mass spectrometry and electron microscopy analysis of ribosomal 30S subunit assembly in E. coli. (scripps.edu)
Large1
Five major nuclear ribosomal repeats represent a large and variable fr by Michael S. Bobola, Dirk E. Smith et al. (lookformedical.com)
Resolution1
Electron energy loss spectroscopy allows one to look at chemical binding states of 100-nm thin section specimens, with about 0.5-eV energy resolution in most instruments and a spatial resolution of 5 nm or better. (nationalacademies.org)
Translation1
Expression of the Escherichia coli tryptophanase operon depends on ribosome stalling during translation of the upstream TnaC leader peptide, a process for which interactions between the TnaC nascent chain and the ribosomal exit tunnel are critical. (cipsm.de)
Factor1
Huang YH, Said N, Loll B, Wahl MC (2019) Structural basis for the function of SuhB as a transcription factor in ribosomal RNA synthesis. (fu-berlin.de)