Bacterial hu proteins with dna. Medical search. Frequent questions

Examples include the HU protein in Escherichia coli, a dimer of closely related alpha and beta chains and in other bacteria can be a dimer of identical chains. (wikipedia.org)
HU-type proteins have been found in a variety of bacteria (including cyanobacteria) and archaea, and are also encoded in the chloroplast genome of some algae. (wikipedia.org)
Histone-like proteins were unknown to be present in bacteria until similarities between eukaryotic histones and the HU-protein were noted, particularly because of the abundancy, basicity, and small size of both of the proteins. (wikipedia.org)
Upon further investigation, it was discovered that the amino acid composition of HU resembles that of eukaryotic histones, thus prompting further research into the exact function of bacterial DNA binding proteins and discoveries of other related proteins in bacteria. (wikipedia.org)
Currently, many more functions of bacteria DNA binding proteins have been discovered, including the regulation of gene expression by histone-like nucleoid-structuring protein, H-NS. (wikipedia.org)
H-NS is about 15.6 kDa and assists in the regulation of bacterial transcription in bacteria by repressing and activating certain genes. (wikipedia.org)
Bacteria that are referred to as " Gram-positive ", such as the ones in our digestive system that help us break down food, can't survive without working HU . (smithsonianmag.com)
And "Gram-negative bacteria", which are typically the ones that make us ill such as Salmonella enterica , become much less harmful without HU . (smithsonianmag.com)
Well-known examples are the eukaryotic and archaeal histones that wrap DNA and the nucleoid-associated proteins in bacteria and archaea that bend and bridge DNA. (universiteitleiden.nl)
It is remodeled actively in eukaryotes by motor enzymes that can move or displace nucleosomes, in addition to remodeling mechanisms more ubiquitous in bacteria and archaea that are based on the interplay between multiple architectural proteins. (universiteitleiden.nl)
Models suggest that in bacteria and archaea there are direct effects of physicochemical factors such as osmolarity, temperature and pH on the action of chromatin proteins, in addition to indirect effects by modulating the expression ratios of different types of chromatin proteins. (universiteitleiden.nl)
Gene expression in bacteria is regulated at different levels, of which the first one is the regulation of transcription mediated by DNA-binding regulatory proteins. (u-szeged.hu)
Given the urgent need for new antibiotics to combat drug-resistant bacteria, it is logical to evaluate whether or not unexploited bacterial processes, such as orisome assembly, should be more closely examined for sources of novel drug targets. (mdpi.com)
Increased intestinal permeability has been known to contribute to bacterial translocation, a process wherein detrimental bacteria traverse the intestinal barrier and gain access to the bloodstream, thereby increasing the susceptibility of the body to infections ( 11 - 13 ). (frontiersin.org)
Here I propose to call the polyP-Lon complex the "stringent protease," and I discuss new insights of protein degradation control in bacteria. (go.jp)
In order to cut, a specific sequence of DNA of between 2 and 5 nucleotides (the exact sequence depends upon the bacteria which produces the Cas9) must lie at the 3' end of the guide RNA: this is called the protospacer adjacent motif (PAM). (bmj.com)
Conjugation of dyes but also drugs against Gram-negative bacteria is an opportunity to improve the detection and the treatment of bacterial infection. (helmholtz-hzi.de)
Hu S, Kong J, Sun Z, Han L , Kong W, Yang P. Heterologous Protein Display on the Cell Surface of Lactic Acid Bacteria Mediated by the S-Layer Protein . (uwm.edu)
The HLA complex helps the immune system distinguish the body's own proteins from proteins made by foreign invaders such as viruses and bacteria. (medlineplus.gov)
Microorganisms capable of catabolizing lignin-derived ar- carbohydrate and protein components of the organic matter omatics are essentially fungi and bacteria (Bugg et al. (lu.se)

ParABS partition systems, comprising the centromere-like DNA sequence parS, the parS -binding ParB-CTPase and the nucleoid-binding ParA-ATPase, ensure faithful segregation of bacterial chromosomes and low-copy-number plasmids. (biorxiv.org)

The involvement of viral DNA-binding proteins in the regulation of virulence genes, transcription, DNA replication, and repair make them significant targets. (mdpi.com)
While techniques for altering DNA at the molecular level are becoming more widely used, it's also possible to simply turn genes on or off without permanently changing the underlying genetic material. (smithsonianmag.com)
In this context, DNA-binding transcription factors (TFs) play an important regulatory role by either repressing or activating genes in response to environmental and physiological conditions. (biomedcentral.com)
Its basic shape is imposed by the proteins mentioned above, but it is subject to continuous remodeling to live up to the demands of genes being expressed or repressed. (universiteitleiden.nl)
In addition to dissecting these mechanistic aspects of gene regulation, we are interested in the roles and physiological consequences of the products of genes regulated by chromatin proteins. (universiteitleiden.nl)
As transcription of many genes and operons responds to environmental changes and as these are often mediated by chromatin proteins, it is expected that 1) the architectural interplay of such proteins and/or 2) their direct response to physicochemical changes determines loop formation and dissolution leading to altered transcription levels. (universiteitleiden.nl)
We showed that strains of Pseudomonas aeruginosa with increased mutation rates (caused by deletion of genes involved in DNA mismatch repair) produced more biofilm biomass in laboratory experiments. (southampton.ac.uk)
After integration of the T-DNA into the plant chromosomes, expression of genes of the integrated DNA results in unbalanced production of plant hormones, which leads to uncontrolled cell division and consequently to tumour formation. (u-szeged.hu)
Moreover, the integrated bacterial genes direct the synthesis of specific molecules, collectively called opines, in the tumour cells. (u-szeged.hu)
The catabolism of opines is directed by genes located on the Ti plasmids, but these genes are not part of the T-DNA which is transferred into the plant genome. (u-szeged.hu)
In vivo analysis using reporter genes indicated that the NocR protein is a regulatory protein with dual functions, i.e. (u-szeged.hu)
It was shown by gel retardation and DNaseI footprinting assays that the NocR protein binds to the intervening region between the coding sequences of the nocR and nocP genes either in the absence or presence of nopaline. (u-szeged.hu)
In vivo analyses using reporter genes indicted that transcription of the nocR gene on its own and in combination with the operator sequence is able to repress expression of the nocP gene to a certain extent even in the absence of the NocR protein. (u-szeged.hu)
Then, they evaluate proteins produced by the organism and check to see if they line up with their source genes or match the makeup of known allergens or toxins. (popsci.com)
Nucleolar protein Spindlin1 recognizes H3K4 methylation and stimulates the expression of rRNA genes. (e-omics.com)
Interestingly, RNA-seq revealed that G. haimaensis hosts responded to B. pettiboneaei parasitism through significant upregulation of protein and lipid anabolism related genes, and that this parasitism may enhance host mussel nutrient anabolism but inhibit the host's ability to absorb nutrients, thus potentially helping the parasite obtain nutrients from the host. (frontiersin.org)
To resolve phylogenetic relationships among ries of bacterial clonal complexes by using concatenated isolates, we sequenced 68 isolates from Europe and North sequences of housekeeping genes when within-loci and America at 1 chromosomal locus (16S-23S ribosomal RNA between-loci recombinations are infrequent ( 5 ). (cdc.gov)
In this study, we investigated the adjuvant activities of combinations of Toll-like receptor 9 (TLR9) and stimulator of interferon genes (STING) agonists in a SARS-CoV-2 receptor binding domain protein vaccine. (ijbs.com)
MHC class I genes provide instructions for making proteins that are present on the surface of almost all cells. (medlineplus.gov)
It appears likely that other factors, such as viral or bacterial infections and changes in other genes, also influence the development of this complex disorder. (medlineplus.gov)

They verify that the DNA inserted-more on just what that is in a moment-works correctly and is stable, meaning that it doesn't jump around within the chromosome of the organism. (popsci.com)
The DNA added in the process is embedded into the chromosome of the food that's being modified. (popsci.com)
Chromosome replication is triggered when a nucleoprotein complex, termed the orisome, assembles, unwinds the duplex DNA, and recruits the proteins required to establish new replication forks. (mdpi.com)
Obviously, the initiation of chromosome replication is essential to bacterial reproduction, but this process is not inhibited by any of the currently-used antimicrobial agents. (mdpi.com)

A few other mechanisms in E. coli that variously regulate initiation are DDAH (datA-Dependent DnaA Hydrolysis, which is also regulated by IHF), inhibition of the dnaA gene (by the SeqA protein), and reactivation of DnaA by the lipid membrane. (wikipedia.org)
These proteins bind to operator sequences in the vicinity of the regulated promoters, and repress or activate gene expression in response to small effector molecules in order to ensure the correct spatial and temporal presence of gene products for the cellular biochemical processes. (u-szeged.hu)
The mechanism of regulation of gene expression by regulatory proteins is implemented by different means in which both DNA-protein and protein-protein interactions in and around the regulated promoter regions, and particular tertiary conformational alterations at the DNA and protein levels may all be involved. (u-szeged.hu)
The nocR-nocP region was sequenced and sequence analysis revealed that the nocR gene encodes a putative DNA-binding regulatory protein, which belongs to the family of LysR-type bacterial activator proteins, while the nocP gene encodes a putative ABC-type transporter protein which is very likely involved in the uptake of nopaline. (u-szeged.hu)
An example is when a gene from a soil bacterium (Bt) was spliced into corn DNA to create an insect-resistant corn. (popsci.com)
In the standard method, a piece of DNA is inserted into cells, sometimes with a gene gun, and sometimes via a specialized bug called Agrobacterium tumefaciens . (popsci.com)
That inserted DNA comes with tools that the organism can use to turn the simple gene code (which is in essence an instruction manual) into RNA, and finally, into a protein. (popsci.com)
The protein encoded by this gene is a subunit of nuclear domain 10 (ND10) bodies. (genetex.com)
Students can learn molecular diagnostic methods such as PCR, DNA finger-printing, gene mapping, and protein analysis. (hawaii.edu)
The A and B clones of Borrelia burgdorferi sensu stric- maintenance of these clonal complexes in natural bacterial to, distinguished by outer surface protein C ( ospC ) gene populations ( 3 , 4 ). (cdc.gov)
CRISPR/Cas9 is a gene-editing technology which involves two essential components: a guide RNA to match a desired target gene, and Cas9 (CRISPR-associated protein 9)-an endonuclease which causes a double-stranded DNA break, allowing modifications to the genome (see figure 1 ). (bmj.com)
My work spans two important areas of biochemistry: enzyme catalysis and regulation of gene expression by DNA-binding proteins. (uwm.edu)
The HLA-B gene provides instructions for making a protein that plays a critical role in the immune system. (medlineplus.gov)
The HLA-B gene has many possible variations, that result in the production of proteins that differ by changes in at least one protein building block (amino acid). (medlineplus.gov)
Most HLA-B gene alleles are rare, while others do not affect protein function or change the structure of the protein. (medlineplus.gov)

A portion of this plasmid was derived from a plasmid made by BiFC fragment DNA was generated synthetically to generate peptides described in: Y. Kodama, C.-D. Hu, An improved bimolecular fluorescence complementation assay with a high signal-to-noise ratio, BioTechniques. (addgene.org)
On the cell surface, these proteins are bound to protein fragments (peptides) that have been exported from within the cell. (medlineplus.gov)
MHC class I proteins display these peptides to the immune system. (medlineplus.gov)
If the immune system recognizes the peptides as foreign (such as viral or bacterial peptides), it responds by triggering the infected cell to self-destruct. (medlineplus.gov)

The formation of a complex then enables Lon to degrade free ribosomal proteins. (go.jp)
Certain very abundant ribosomal proteins can be the sacrificial substrates targeted for degradation at the onset of the downshift. (go.jp)
Some of the enzymes which generate aromatic radicals that break down most prominent bacterial strains found were isolated and tax- the complex linkages present in lignin to compounds of lower onomically identified using 16S ribosomal RNA (rRNA) se- molecular weight. (lu.se)
Binds to 50 S bacterial ribosomal subunits and inhibits bacterial growth by inhibiting protein synthesis. (medscape.com)

the protein is involved in stabilizing the lagging strand as well as interacting with DNA polymerase III. (wikipedia.org)
The role of single-stranded DNA binding (SSB) protein during DNA replication in Escherichia coli cells has been studied, specifically the interactions between SSB and the χ subunit of DNA polymerase III in environments of varying salt concentrations. (wikipedia.org)
In DNA replication at the lagging strand site, DNA polymerase III removes nucleotides individually from the DNA binding protein. (wikipedia.org)
Research has shown that the ssDNA is stabilized by the interaction of SSB and the χ subunit of DNA polymerase III in E. coli, thus preparing for replication by maintaining the correct conformation that increases the binding affinity of enzymes to ssDNA. (wikipedia.org)
Furthermore, binding of SSB to DNA polymerase III at the replication fork prevents dissociation of SSB, consequently increasing the efficiency of DNA polymerase III to synthesize a new DNA strand. (wikipedia.org)
When H-NS is bound with RNA Polymerase to the promoter region, there are structural differences in the DNA that are accessible. (wikipedia.org)
The DnaC helicase loader then interacts with the DnaA bound to the single-stranded DNA to recruit the DnaB helicase, which will continue to unwind the DNA as the DnaG primase lays down an RNA primer and DNA Polymerase III holoenzyme begins elongation. (wikipedia.org)
Once priming is complete, DNA polymerase III holoenzyme is loaded into the DNA and replication begins. (wikipedia.org)
The catalytic mechanism of DNA polymerase III involves the use of two metal ions in the active site, and a region in the active site that can discriminate between deoxyribonucleotides and ribonucleotides. (wikipedia.org)
Furthermore, DNA polymerase III must be able to distinguish between correctly paired bases and incorrectly paired bases. (wikipedia.org)
These interactions result in the DNA polymerase III closing around a correctly paired base. (wikipedia.org)
TCR initiates when RNA polymerase (RNAP) stalled by a lesion is displaced by the Mfd DNA translocase, thus giving repair components access to the damage. (nature.com)
disassembly of the UvrBC-DNA complex by helicase II and DNA polymerase I. (nature.com)
Sigma factors are a class of proteins constituting essential dissociable subunits that confer sequence-specific DNA binding properties to RNA polymerase (RNAP). (hindawi.com)
Within the RNAP holoenzyme, sigma factors provide promoter recognition specificity to the polymerase and contribute to DNA strand separation, then they dissociate from RNAP core enzyme and transcription initiation follows [ 1 ]. (hindawi.com)
Primer will be removed by a 5' to 3' exonuclease activity in DNA polymerase I. (kipdf.com)
Two metal ions (Mg or Mn) are crucial to the action of DNA polymerase. (kipdf.com)
Proposed structure of DNA pol III holoenzyme (900 kD, 10 subunits, asymmetric dimer, one for leading, one for lagging strand (α is polymerase, ε is proofreading 3'Æ5' exonuclease, β2 and δ2 for processivity). (kipdf.com)

Following elution, the protein readily binds DNA, indicating the protein's high affinity for DNA. (wikipedia.org)
H-NS binds to DNA with an intrinsic curvature. (wikipedia.org)
At non-permissive forces for condensation, ParB binds non-specifically and highly dynamically to DNA. (elifesciences.org)
the section of RNA which binds to the genomic DNA is 18-20 nucleotides. (bmj.com)

in these processes, bacterial DNA binding proteins have an architectural role, maintaining structural integrity as transcription, recombination, replication, or any other DNA-dependent process proceeds. (wikipedia.org)
An unstable SSB/DNA system would result in rapid disintegration of the SSB, which stalls DNA replication. (wikipedia.org)
Prokaryotic DNA Replication is the process by which a prokaryote duplicates its DNA into another copy that is passed on to daughter cells. (wikipedia.org)
All cells must finish DNA replication before they can proceed for cell division. (wikipedia.org)
For the same reason, the initiation of DNA replication is highly regulated. (wikipedia.org)
Bacterial origins regulate orisome assembly, a nuclei-protein complex assembled on the origin responsible for unwinding the origin and loading all the replication machinery. (wikipedia.org)
In E. coli, the direction for orisome assembly are built into a short stretch of nucleotide sequence called as origin of replication (oriC) which contains multiple binding sites for the initiator protein DnaA (a highly homologous protein amongst bacterial kingdom). (wikipedia.org)
Replication of T4 phage DNA in E. coli, wild type vs. ligase mutant, with 3Hthymidine pulse labeling (when ung- E. coli mutant was used, >50% of newly labeled DNA was still in short pieces). (kipdf.com)
Regardless of organism, replication origins are unique DNA segments with multiple short repeats, recognized by multimeric origin-binding proteins, and usually contain an A-T rich stretch. (kipdf.com)

Midha, A., K. Janek, A. Niewienda, P. Henklein, S. Guenther, D.O. Serra, J. Schlosser, R. Hengge, and S. Hartmann (2018) The intestinal roundworm Ascaris suum releases antimicrobial factors which interfere with bacterial growth and biofilm formation. (hu-berlin.de)
Klauck, G., D.O. Serra, A. Possling, and R. Hengge (2018) Spatial organisation of different sigma factor activities and c-di-GMP signalling within the 3D landscape of a bacterial biofilm. (hu-berlin.de)
1) Galperin, M.Y. and D.N. Shalaeva (2018) A bacterial coat that is not pure cotton. (hu-berlin.de)

Type I partition systems, also known as ParABS include an ATPase motor protein, ParA, responsible for the movement of the replicated chromosomes to the distal pole of the cell, a DNA binding protein ParB, and a centromere-like DNA sequence, parS ( Funnell, 2016 ). (elifesciences.org)

In molecular biology, bacterial DNA binding proteins are a family of small, usually basic proteins of about 90 residues that bind DNA and are known as histone-like proteins. (wikipedia.org)
The structure of a covalent Nei-DNA complex has been recently determined, revealing critical amino acid residues which are important for DNA binding and catalysis. (huji.ac.il)

They are commonly referred to as histone-like and have many similar traits with the eukaryotic histone proteins. (wikipedia.org)
Eukaryotic histones package DNA to help it to fit in the nucleus, and they are known to be the most conserved proteins in nature. (wikipedia.org)
In these high salt concentrations, the eukaryotic histone protein is eluted from a DNA solution in which single stranded DNA is bound covalently to cellulose. (wikipedia.org)
HU is a small (10 kDa) bacterial DNA-binding protein, which structurally differs from a eukaryotic histone but functionally acts similarly to a histone by inducing negative supercoiling into circular DNA with the assistance of topoisomerase. (wikipedia.org)
Slicing by DNA-guided prokaryotic AGOs has been studied in detail, but structural insights into RNA-guided slicing by eukaryotic AGOs are lacking. (nature.com)
We have pointed out that protein Stl which was originally identified as a bacterial repressor is also able to form a stable protein complex with the eukaryotic Drosophila melanogaster dUTPase and inhibit remarkably its enzymatic activity (6). (ecanews.org)
Our results indicated that the amino acid side-chains being involved in this interaction are partially evolutionarily conserved among bacterial and eukaryotic dUTPase homologues. (ecanews.org)

We previously used DNA nanomanipulation to obtain a nanomechanical readout of protein-DNA interactions during TCR initiation. (nature.com)

Escherichia coli endonuclease VIII (Nei) excises oxidized pyrimidines from DNA. (huji.ac.il)
Kettles, R., N. Tschowri, K. Lyons, P. Sharma, R. Hengge, M. Webber, and D. Grainger (2019) The Escherichia coli MarA protein regulates the ycgZ-ymgABC operon to inhibit biofilm formation. (hu-berlin.de)

Structural basis for bacterial transcription-coupled DNA repair. (nature.com)
however, analysis of structural dynamics of Fpg/Nei family proteins has been hindered by the lack of structures of uncomplexed and DNA-bound enzymes from the same source. (huji.ac.il)
2017. Loss of a doublecortin (DCX)-domain protein causes structural defects in a tubulin-based organelle of Toxoplasma gondii and impairs host-cell invasion. (indiana.edu)

To test this possibility, we focused on gepotidacin, an antibiotic candidate that selectively inhibits both bacterial DNA gyrase and topoisomerase IV. (mtak.hu)
Occupational exposure limits with proteins such as topoisomerase inhibitors, and mitotic and meiotic spindle poisons. (cdc.gov)

A comparison of the TF repertoire of S. aureus against 1209 sequenced bacterial genomes was carried out allowing us to identify a core set of orthologous TFs for the Staphylococacceae , and also allowing us to assign potential functions to previously uncharacterized TFs. (biomedcentral.com)
We have evaluated the orthologous distribution of these elements in other sequenced bacterial genomes using the repertoire of TFs identified in USA300, and identified a core set of regulators for both the Firmicutes phylum, and the Staphylococacceae group. (biomedcentral.com)
Independent of these cytological differences, all genomes are shaped by the action of abundant proteins with architectural function. (universiteitleiden.nl)
All bacterial cells must duplicate their genomes prior to dividing into two identical daughter cells. (mdpi.com)

This hydrolysis drives DNA synthesis to completion. (wikipedia.org)
2017. Treadmilling by FtsZ filaments drives peptidoglycan synthesis and bacterial cell division. (indiana.edu)
2017. Rapid DNA Synthesis During Early Drosophila Embryogenesis Is Sensitive to Maternal Humpty Dumpty Protein Function. (indiana.edu)
Inhibits bacterial growth by inhibiting synthesis of dihydrofolic acid. (medscape.com)

Meanwhile, several other proteins interact directly with the oriC sequence to regulate initiation, usually by inhibition. (wikipedia.org)
Architectural proteins, although minimally conserved in terms of structure and sequence among kingdoms, act upon DNA using conserved mechanisms (Luijsterburg et al. (universiteitleiden.nl)
The binding site of NocR was localised to a 72 bp long DNA sequence in the nocR promoter region, upstream of the nocP promoter. (u-szeged.hu)
In the binding site of NocR a CATGN4CATG tandem palindrome was identified and it was proven both in vitro and in vivo that this sequence functions as the operator for the NocR protein. (u-szeged.hu)
Overlapping the operator sequence, two interesting sequence features, an 18 bp alternating purine-pyrimidine sequence able to form Z-DNA, and a putative gyrase (an enzyme involved in adjusting cellular superhelicity) recognition site were found. (u-szeged.hu)
It shares significant sequence homology and similar mechanism with Fpg, a bacterial 8-oxoguanine glycosylase. (huji.ac.il)
Recombinant protein encompassing a sequence within the center region of human NDP52. (genetex.com)
Multilocus sequence typing (MLST) is the use of DNA dorferi ( 9 , 10 ). (cdc.gov)
It is the latter which allows precise genome editing: the homologous section of DNA with the required sequence change may be delivered with the Cas9 nuclease and sgRNA, theoretically allowing changes as precise as a single base-pair. (bmj.com)

The integration host factor (IHF), a dimer of closely related chains which is suggested to function in genetic recombination as well as in translational and transcriptional control is found in Enterobacteria and viral proteins including the African swine fever virus protein A104R (or LMW5-AR). (wikipedia.org)
ND10 proteins are removed from the nucleus by herpes simplex virus-1 infection and may have a role in viral life cycles. (genetex.com)

This can contribute to biofilm dispersal, and provides a mechanism for the release of extracellular DNA (eDNA) within biofilms. (southampton.ac.uk)
An increase in bacterial mutation rate can promote biofilm formation. (southampton.ac.uk)
Based on this, we wanted to identify this protein in V. alginolyticus ZJ-51 and study whether it has a role in biofilm formation and stress response in the two colony phase variants. (hindawi.com)
Common plant flavonoids prevent the assembly of amyloid curli fibres and can interfere with bacterial biofilm formation. (hu-berlin.de)

Once we verify the link between specific epigenetic changes and bacterial infection, we can begin looking for substances that alter bacteria's epigenetics in this way to make it less harmful. (smithsonianmag.com)
Lyme disease is a multisystem infection, with infl am- tinents, and isolates of this clone were uniform in DNA se- matory complications that commonly affect the skin, joints, quences, which suggests a recent trans-oceanic migration. (cdc.gov)

Adding the acetyl tag is a natural mechanism used by cells to change the way histone interacts with DNA. (smithsonianmag.com)
Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage. (nature.com)
The second part is focused on a new family of two-component response regulator proteins that lack the catalytic aspartate residue that mimics the phosphorylation mechanism of typical 2-component response regulators. (uwm.edu)

Our interest lies in understanding how architectural proteins act on DNA and how they regulate transcription. (universiteitleiden.nl)
Our current aim is to obtain an integrated picture of the interplay between spatial genome organization and DNA transactions in general and transcription in specific. (universiteitleiden.nl)
Hanawalt, P.C. & Spivak, G. Transcription-coupled DNA repair: two decades of progress and surprises. (nature.com)
Park, J.-S., Marr, M.T. & Roberts, J.W. E. coli transcription repair coupling factor (Mfd protein) rescues arrested complexes by promoting forward translocation. (nature.com)

2021) Principles of mRNA targeting and regulation via the Arabidopsis m6A-binding proteins ECT2 and ECT3. (oeaw.ac.at)
2021) Cdc4 phospho-degrons allow differential regulation of Ame1CENP-U protein stability across the cell cycle. (oeaw.ac.at)
Elucidate the structure, dynamics and functions of intrinsically disordered proteins and protein regions (IDPs/IDRs) and their biological regulation by Post-translational modifications. (upstate.edu)

2017). However, interpretation of the molecular basis for this phenomenon was complicated by our inability to uncouple protein binding from DNA condensation. (elifesciences.org)
The NocR protein was expressed in E. coli and it was proven that the molecular mass of its subunit is 31.5 kDa. (u-szeged.hu)
VMD is a molecular graphics program designed for the display and analysis of molecular assemblies, in particular biopolymers such as proteins and nucleic acids. (uiuc.edu)

The Leishmania metaphylome: a comprehensive survey of Leishmania protein phylogenetic relationships. (cdc.gov)

Of particular interest are the models for global genome organization based on DNA looping in which a central role is played by the H-NS (E. coli) and Alba (Sulfolobus sp. (universiteitleiden.nl)

The theory presumes that individual mutations provide little or no benefit to the bacterial host. (mtak.hu)
Here, we propose that such individual stepping-stone mutations can be prevalent in clinical bacterial isolates, as they provide significant resistance to other antimicrobial agents. (mtak.hu)
All three structures are virtually identical, demonstrating that the mutations did not affect the overall conformation of the protein in its free state. (huji.ac.il)
Extracellular vesicle DNA from human melanoma tissues contains cancer-specific mutations. (gu.se)

Antibiotics no longer work on some strains of A. baumannii - and the World Health Organization recently ranked it as the greatest bacterial threat to human health . (smithsonianmag.com)
Bacterial strains and plasmids are described in Table 1 . (hindawi.com)

In other words, it is possible that in fast growth conditions the grandmother cells starts replicating its DNA for grand daughter cell. (wikipedia.org)
The genomic DNA of every organism is organized and compacted in order to fit inside the cell. (universiteitleiden.nl)
CD45 is also important in promoting cell survival by modulating integrin-mediated signal transduction pathway, DNA fragmentation during apoptosis and inhibition or upregulation of various immunological functions. (thermofisher.com)
Immunoprecipitation of NDP52 protein from Jurkat whole cell extracts using 5 μg of NDP52 antibody (GTX115378). (genetex.com)
Following a so-called Trojan horse strategy, a bio-ligand or targeting moiety such as a sugar-residue or an iron-complex is recognized by bacterial transporters and actively translocated into the cell. (helmholtz-hzi.de)
In our approach, oligomers of maltose are functionalized at various positions and used as transporters for antibiotics into the bacterial cell. (helmholtz-hzi.de)
Their dysfunction poses severe consequences to most cells or organisms, since increased uracil incorporation leads to DNA double strand breaks and eventually cell death via hypersensitization of the uracil base excision repair process. (ecanews.org)
2017. Full color palette of fluorescent d-amino acids for in situ labeling of bacterial cell walls. (indiana.edu)
Crystal structure of the bacterial cell division regulator MinD. (degruyter.com)
Other research suggests that the joint inflammation characteristic of this disorder may result from improper folding of the HLA-B27 protein or the presence of abnormal forms of the protein on the cell surface. (medlineplus.gov)

Repair after the DNA cut may occur via two pathways: non-homologous end joining, typically leading to a random insertion/deletion of DNA, or homology directed repair where a homologous piece of DNA is used as a repair template. (bmj.com)

Evidence that MgATP accelerates primary electron transfer in a Clostridium pasteurianum Fe protein- Azotobacter vinelandii MoFe protein nitrogenase tight complex. (degruyter.com)

Histone organizes our 2m-long DNA molecules so that they can fit neatly inside our 100 micrometer-long cells. (smithsonianmag.com)
An icosahedral virus as a fluorescent calibration standard: a method for counting protein molecules in cells by fluorescence microscopy. (indiana.edu)

These so-called aspartate-less receiver domain (ALR) proteins are not regulated by phosphorylation, but by other factors such as binding of a ligand. (uwm.edu)

This folded structure including the associated architectural proteins is referred to as chromatin. (universiteitleiden.nl)
Remodeling of chromatin is also mediated by chemical modifications of the DNA, the architectural proteins that shape it or physicochemical cues. (universiteitleiden.nl)
Also, my group is investigating the (architectural) interplay between different types of chromatin proteins in vitro (Laurens et al. (universiteitleiden.nl)

Multitargeting antibiotics, i.e., single compounds capable of inhibiting two or more bacterial targets, are generally considered to be a promising therapeutic strategy against resistance evolution. (mtak.hu)

We recently studied a possible way to affect bacterial epigenetics that might be able to stop infections without using antibiotic drugs. (smithsonianmag.com)
So if we can create drugs that make these changes to bacterial proteins in this way, we could have a new way of stopping infections. (smithsonianmag.com)
RÉSUMÉ L'émergence et la propagation rapide des souches de Klebsiella pneumoniae résistantes aux antibiotiques et porteuses du gène blaKPC codant la production de carbapénèmases ont compliqué la prise en charge des infections des patients. (who.int)

It is hypothesized that DNA stretching by DnaA bound to the origin promotes strand separation which allows more DnaA to bind to the unwound region. (wikipedia.org)

The FDA formally defined a genetically modified organism as a plant, animal, or microbe that has had its genetic material, or DNA, specifically altered using technology to introduce a new trait. (popsci.com)
This also includes the transfer of a section of DNA from one organism to another. (popsci.com)

[email protected] The dUTPase enzyme family plays a key role in maintaining genomic integrity throughout preventing uracil incorporation into DNA (1). (ecanews.org)

Argonaute (AGO) proteins use small RNAs to recognize transcripts targeted for silencing in plants and animals. (nature.com)

In this study, 686 isolates were collected from four commercial fermentations and analyzed by DNA fingerprinting. (who.int)
Bacterial metabolism selected lignin model compounds (vanillin, vanillate, 4- hydroxybenzoate, p-coumarate, benzoate, and ferulate) was carried out with three of the Pseudomonas isolates and in addition with the strain Pseudomonas putida KT2440 from a Introduction culture collection. (lu.se)

Bacillus subtilis ParB forms multimeric networks involving non-specific DNA binding leading to DNA condensation. (elifesciences.org)

Biofilms are increasingly recognised as the predominant mode of bacterial growth including within medical, engineered, and environmental contexts. (southampton.ac.uk)
We discovered that exogenous nitric oxide can act as a signal for the dispersal of bacterial biofilms. (southampton.ac.uk)

The MEKK1-MKK1/MKK2-MPK4 kinase cascade negatively regulates immunity mediated by a mitogen-activated protein kinase kinase kinase in Arabidopsis. (e-omics.com)
Brodersen P, Arribas-Hernández L, ..., Nodine MD (2021) The Arabidopsis m6A-binding proteins ECT2 and ECT3 bind largely overlapping mRNA target sets and influence target mRNA abundance, not alternative polyadenylation. (oeaw.ac.at)

Cas9, one of the associated proteins, is an endonuclease that cuts both strands of DNA. (bmj.com)

We are using biophysical tools to determine the regulatory mechanisms of proteins with redox-sensitive ALR domains. (uwm.edu)

Nopaline had no influence on the binding affinity of NocR, but changed the conformation of the NocR-noc DNA complex. (u-szeged.hu)

We studied CTP- and parS F -modulated ParA F -ParB F complex assembly, in which DNA-bound ParA F -ATP dimers are activated for ATP hydrolysis by interacting with two ParB F N-terminal domains. (biorxiv.org)
Magnetic-tweezers experiments showed that CTP promotes multiple ParB F loading onto parS F -containing DNA, generating condensed partition complex-like assemblies. (biorxiv.org)
and results in the formation of a large nucleo-protein complex (the partition complex) around the parS site on the DNA to be partitioned. (biorxiv.org)
Displacement of stalled RNAP by Mfd results in loss of nascent RNA but not of RNAP, which remains associated with Mfd as a long-lived complex on the DNA. (nature.com)
This complex translocates at ∼ 4 bp/s along the DNA, in a manner determined by the orientation of the stalled RNAP on the DNA. (nature.com)
The structures show a significant conformational change compared with the Nei structure in its complex with DNA, reflecting a ∼50° rotation of the two main domains of the enzyme. (huji.ac.il)

Dr. Silvaggi Lab is working on many proteins (like ADC family, RitR) and exploring the mechanisms based on their structure and enzyme kinetics. (uwm.edu)

These dinoflagellate histone-like proteins replace histone in some dinoflagellates and package DNA into a liquid-crystalline state. (wikipedia.org)
Histone-like proteins are present in many Eubacteria, Cyanobacteria, and Archaebacteria. (wikipedia.org)
In particular, we can add a tag known as an acetyl group to an important protein called histone. (smithsonianmag.com)
Bacterial cells have their own version of histone known as HU, which organizes their DNA and is involved in making all its functions work. (smithsonianmag.com)
2021) The histone variant H2A.W and linker histone H1 co-regulate heterochromatin accessibility and DNA methylation. (oeaw.ac.at)

Ixodes ricinus ticks ( 11 ) and is carried by a large variety of ize genetic variations of natural populations of a bacterial hosts, including birds and small- to medium-sized mam- pathogen ( 1 , 2 ). (cdc.gov)

Localized areas of demyelination (plaques) occur, with destruction of oligodendroglia, perivascular inflammation, and chemical changes in lipid and protein constituents of myelin in and around the plaques. (msdmanuals.com)

In addition, dsDNA (double stranded DNA) in the active site has a wider major groove and shallower minor groove that permits the formation of hydrogen bonds with the third nitrogen of purine bases and the second oxygen of pyrimidine bases. (wikipedia.org)

2021) The YTHDF proteins ECT2 and ECT3 bind largely overlapping target sets and influence target mRNA abundance, not alternative polyadenylation. (oeaw.ac.at)

We investigate the activity of these proteins in vitro as well as in vivo using biochemical and state-of-the-art biophysical approaches. (universiteitleiden.nl)
We also showed that the presence of an excess of the CTD prevented DNA condensation by ParB and induced disruption of ParB networks in vitro and in vivo. (elifesciences.org)

Protein kinase WNK3 regulates the neuronal splicing factor Fox-1. (e-omics.com)

Basic ParABS systems comprise two proteins, ParA and ParB, and a centromere-like, cis-acting DNA element called parS . (biorxiv.org)

The protein is composed of 279 amino acids. (hindawi.com)
To solve this dilemma, cells must use their own proteins as sources of amino acids in response to the nutritional downshift. (go.jp)

Anatomy1

Organisms1

Chemicals and Drugs11

Analytical, Diagnostic and Therapeutic Techniques and Equipment2

Phenomena and Processes9

Information Science3

Health Care2

Bacteria20

Segregation of bacterial chromosomes1

Genes20

Chromosome4

Gene15

Peptides4

Ribosomal4

Polymerase18

Binds4

Replication9

20183

Centromere-like DNA sequence1

Residues2

Eukaryotic7

Interactions1

Escherichia2

Structural3

Topoisomerase2

Genomes4

Synthesis4

Sequence9

Viral2

Biofilm4

Infection2

Mechanism3

Transcription4

Regulation3

Molecular3

Phylogenetic relationships1

Coli1

Mutations4

Strains2

Cell10

Homologous1

Electron1

Molecules2

Phosphorylation1

Chromatin3

Targets1

Infections3

Strand1

Organism2

Genomic1

RNAs1

Isolates2

Multimeric1

Biofilms2

Arabidopsis2

Endonuclease1

Regulatory1

Conformation1

Complex6

Mechanisms1

Histone5

Populations1

Lipid1

Double stranded1

MRNA1

Vitro2

Regulates1

ParABS1

Amino acids2