- Journal article
Authors : Dodge, Greg J. (2023) - Phosphoglycosyl transferases (PGTs) are among the first membrane-bound enzymes involved in the
biosynthesis of bacterial glycoconjugates. Robust expression and purification protocols for an abundant
subfamily of PGTs remains lacking. Recent advancements in detergent-free methods for membrane
protein solubilization open the door for purification of difficult membrane proteins directly from cell
membranes into native-like liponanoparticles. By leveraging autoinduction, in vivo...
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- Journal article
Authors : - (2023) - Functional screening of environmental DNA (eDNA) libraries is a potentially powerful approach to2
discover enzymatic “unknown unknowns”, but is usually heavily biased toward the tiny subset of3
genes preferentially transcribed and translated by the screening strain. We have overcome this by4
preparing an eDNA library via partial digest with restriction enzyme FatI (cuts CATG), causing a5
substantial proportion of ATG start codons to be precisely...
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- Journal Article
Authors : Benisch, Robert (2023) - Intracellular compartmentalization is essential for all cells and enables the regulation and optimization of metabolism1. One of the main functions of subcellular compartments is the storage of nutrients2-4. As bacteria do generally not possess membrane-bound organelles, they often have to rely on functionally analogous protein-based compartments2,5-7. Encapsulin nanocompartments are one of the most prevalent protein-based compartmentalization strategies found in prokaryotes5,8. Here ...
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- Journal article
Authors : Takahashi, Daichi (2023) - MreB is a bacterial protein belonging to the actin superfamily. It polymerises into an antiparallel double-stranded filament that generally functions in cell shape determination by maintaining cell wall synthesis. Spiroplasma eriocheiris, a helical wall-less bacterium, has five classes of MreB homologs (SpeMreB1-5) that are likely to be involved in swimming motility. Here, we investigated the structure, ATPase activity, and polymerisation dynamics of SpeMreB3 and ...
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- Ebooks (Sách điện tử)
Authors : Fraklin, Tyler G (2023) - -
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- Journal article
Authors : Bernacchia, Lorenzo (2023) - Cancer chemotherapeutics kill rapidly dividing cells, which includes cells of the immune system. The 12 resulting neutropenia predisposes patients to infection, which delays treatment and is a major cause 13 of morbidity and mortality. Here we have exploited the cytotoxicity of the anti-cancer compound 14 cisplatin to screen for FDA-approved drugs that impair bacterial nucleotide excision DNA repair (NER), 15 the primary mechanism bacteria use to repair ...
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- Ebooks (Sách điện tử)
Authors : Dikiy, Igor (2023) - Integral to the protein structure/function paradigm, oligomeric state is typically conserved
31 along with function across evolution. However, notable exceptions such as the hemoglobins
32 show how evolution can alter oligomerization to enable new regulatory mechanisms. Here we
33 examine this linkage in histidine kinases (HKs), a large class of widely distributed prokaryotic
34 environmental sensors. While the majority of HKs are transmembrane ...
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- Ebooks (Sách điện tử)
Authors : Karaś, Piotr (2023) - Evolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either two proteins with different functions (IbpA ...
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- Journal article
Authors : Das, Ritam (2021) - Mycobacteriophages are viruses of Mycobacterium spp. with promising diagnostic and therapeutic potential. Phage genome exploration and characterization of their proteomes are essential to gain a better understanding of their role in phage biology. So far, about 2014 mycobacteriophages have been genomically defined and 1563 phage protein families (phamilies) are identified. However, the function of only a fraction (about 15%) is known and a majority of ORFs in...
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- Journal Article
Authors : Kante, Anupama (2023) - According to the WHO, one in three people in the world has a latent tuberculosis infection. Tuberculosis is caused by the bacterium Mycobacterium tuberculosis (M.tb). The development of multi-drug resistant (MDR) tuberculosis indicates a need for novel treatments. Hence, it is important to find a second line of treatment for patients infected with MDR tuberculosis. The proteasome is known to be necessary for survival under stress and pathogenicity i...
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- Journal article
Authors : Pis Diez, Cristian M. (2023) - The vertebrate host's immune system and resident commensal bacteria deploy a range of highly reactive small molecules that provide a barrier against infections by microbial pathogens. Gut pathogens, such as Vibrio cholerae, sense and respond to these stressors by modulating the expression of exotoxins that are crucial for colonization. Here, we employ mass-spectrometry-based profiling, metabolomics, expression assays and biophysical approaches to show that transcription...
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- Journal article
Authors : Pis Diez, Cristian M. (2023) - The vertebrate host's immune system and resident commensal bacteria deploy a range of highly reactive small molecules that provide a barrier against infections by microbial pathogens. Gut pathogens, such as Vibrio cholerae, sense and respond to these stressors by modulating the expression of exotoxins that are crucial for colonization. Here, we employ mass-spectrometry-based profiling, metabolomics, expression assays and biophysical approaches to show that transcription...
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- Journal article
Authors : Bageshwar, Umesh K. (2021) - The twin-arginine translocation (Tat) pathway transports folded proteins across energetic membranes.
Numerous Tat substrates contain co-factors that are inserted before transport with the assistance of redox
enzyme maturation proteins (REMPs), which bind to the signal peptide of precursor proteins. How signal
peptides are transferred from a REMP to a binding site on the Tat receptor complex remains unknown.
Since the signal peptide mediates both ...
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- Journal Article
Authors : Grulich, Michal (2023) - The rapid increase in antibiotic-resistant bacteria and the inability to provide new generations of potent antimicrobials necessitates the search for new, unconventional solutions. Methods based on targeting bacterial communication induced by signaling molecules, known as quorum sensing, are gaining increasing interest. Quorum quenching (QQ), as the process of interrupting this communication is called, can be achieved by enzymatic degradation of signaling molecules and repr...
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- Ebooks (Sách điện tử)
Authors : Khersonsky, Olga (2023) - Albumin is the most abundant protein in the blood serum of mammals and has essential carrier
and physiological roles. Albumins are also used in a wide variety of molecular and cellular
experiments and in the cultivated meat industry. Despite their importance, however, albumins are
challenging for heterologous expression in microbial hosts, likely due to 17 conserved
intramolecular disulfide bonds. Therefore, albumins used in research and bi...
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- Journal Article
Authors : Borrego, Jordi Gómez (2023) - The study of protein interactions in living organisms is fundamental to understanding biological processes and central metabolic pathways. However, our understanding of the bacterial interactome remains limited, hindering the identification of new drug targets and the development of new therapeutic strategies. Here, we predict the assembly of the essential proteins in bacteria using the deep learning protein folding algorithm Alphafold2. We modeled 1089 interactions be...
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- Journal Article
Authors : Serwanja, Jamil (2023) - Collagens form the resilient backbone of the extracellular matrix in mammals. Only few proteases are able to digest triple-helical collagen. Clostridial collagenases can efficiently process collagen. However, little is known about the mechanism of bacterial collagenolyis of either soluble collagen or the multi-hierarchically assembled, insoluble collagen fibers. Here we present a functional analysis of the distinct roles of the individual domains of collagenase G (ColG...
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- Journal article
Authors : Malinen, Anssi M. (2021) - The expression of most bacterial genes commences with the binding of RNA polymerase (RNAP)–s70
holoenzyme to the promoter DNA. This initial RNAP–promoter closed complex undergoes a series of
conformational changes, including the formation of a transcription bubble on the promoter and the
loading of template DNA strand into the RNAP active site; these changes lead to the catalytically active
open complex (RPO) state. Recent cryo-electron mic...
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- Ebooks (Sách điện tử)
Authors : Dym, Orly (2023) - While attempting to study the 3D structure of proteins with bound ligands, one often encounters considerable difficulties. We illustrate, as an example, the bacterial enzyme phosphotriesterase and specifically examine the effects of multiple factors such as the molecular constructs, ligands used during protein expression and purification, crystallization precipitance, and space group on the visualization of molecular complexes of organophosphate ligands bound to the enzyme....
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- Journal article
Authors : Mazumder, Abhishek (2021) - Transcription initiation starts with unwinding of promoter DNA by RNA polymerase (RNAP) to form a catalytically competent RNAP-promoter complex (RPO). Despite extensive study, the mechanism of promoter unwinding has remained unclear, in part due to the transient nature of intermediates on path to RPo. Here, using single-molecule unwinding-induced fluorescence enhancement to monitor promoter unwinding, and single-molecule fluorescence resonance energy transfer to monitor RNAP...
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