• In contrast, other proteins have evolved to bind to specific DNA sequences. (wikipedia.org)
  • Each transcription factor binds to one specific set of DNA sequences and activates or inhibits the transcription of genes that have these sequences near their promoters. (wikipedia.org)
  • Protein design methods use trial and error or more sophisticated methods like directed evolution or inverse folding to generate novel scaffolds or to find novel protein sequences folding into a defined scaffold, respectively. (hindawi.com)
  • Given the intimate relationship between a protein's structure and function, a way to design proteins with targeted properties is to start from a desired structure and find sequences able to fold into it, imposing additional constraints in the process [ 1 ]. (hindawi.com)
  • They anchor themselves and their partner proteins to DNA at binding sites in genetic regulatory sequences, bringing together the components that are needed to make gene expression happen. (mit.edu)
  • the majority of human transcription factors contain an ARM-like region between their DNA and protein binding regions, and these sequences were conserved across animal species. (mit.edu)
  • While DSBs involve in binding to particular dsDNA sequences, to modulate the process of transcription, to cleave DNA molecules, or to be involved in chromosome packaging and transcription in the cell nucleus, etc. (biomedcentral.com)
  • For this, we would make use of datasets about containing DNA-binding proteins and the DNA sequences they bind to. (stackexchange.com)
  • DNA sequences encoding cardiac myosin-binding protein C were determined in unrelated patients with familial hypertrophic cardiomyopathy. (nih.gov)
  • C protein binds strongly to pifO, and weakly to sequences in the ori-1 region. (shengsci.com)
  • 12/15 shared amino acids) and the protein sequences have 70%-82% homology. (cdc.gov)
  • Amino acid position is in a conserved region compared to other Aspergilli (26/31 shared amino acids) and the protein sequences have 84% homology. (cdc.gov)
  • ROESY, NOE spectroscopy in the operator DNA sequences aimed at removing the rotating frame. (lu.se)
  • DNA sequences used for studies of uncomplexed and complexed trp operator. (lu.se)
  • Structural proteins that bind DNA are well-understood examples of non-specific DNA-protein interactions. (wikipedia.org)
  • These non-specific interactions are formed through basic residues in the histones making ionic bonds to the acidic sugar-phosphate backbone of the DNA, and are therefore largely independent of the base sequence. (wikipedia.org)
  • The specificity of these transcription factors' interactions with DNA come from the proteins making multiple contacts to the edges of the DNA bases, allowing them to read the DNA sequence. (wikipedia.org)
  • Protein-DNA interactions occur when a protein binds a molecule of DNA, often to regulate the biological function of DNA, usually the expression of a gene. (wikipedia.org)
  • Hydrophobicity was one of the most important physicochemical properties, due to the fact that it is involved in protein interactions, for example, by forming hydrophobic cores. (hindawi.com)
  • Protein-DNA interactions are involved in many fundamental biological processes essential for cellular function. (nature.com)
  • An analysis of the number of binding sites in the spatial context of the target site indicates that the interactions between binding sites next to each other are important for protein-DNA recognition and their binding ability. (nature.com)
  • Kornberg 7 has presented that the interactions between DNA and histones are involved in chromosome packaging in the cell nucleus. (nature.com)
  • Possible DNA-binding interactions are discussed on the basis of comparisons to other winged helix proteins. (rcsb.org)
  • Selective microfluidics-based ligand enrichment followed by sequencing, or SMiLE-seq, combines antibody arrays, mechanical trapping, and next-generation sequencing readouts to provide a new platform for characterizing DNA-protein interactions. (genomeweb.com)
  • That year, the two published a paper in Science describing a method to trap low-affinity DNA-protein interactions, specifically those of transcription factors. (genomeweb.com)
  • By physically restraining bound molecules against an antibody array, they capture both transient interactions, which yeast two-hybrid or tandem mass spectrometry methods don't, and weak interactions, which are usually obliterated by the wash in protein-DNA microarrays. (genomeweb.com)
  • The transcription factors bind to any number of DNA motifs in the library, those interactions are trapped, and then the readout matches up each motif with the transcription factor via the barcode. (genomeweb.com)
  • Deplancke also worked in advanced bioinformatics to derive predictive models for binding interactions. (genomeweb.com)
  • The clues have been there all along, but I think earlier work was so focused on the DNA and protein interactions that they didn't consider RNA. (mit.edu)
  • Protein-DNA interactions are essential for many biological processes. (biomedcentral.com)
  • Unveil the DNA forms and delve into the major and minor grooves that play roles in protein-DNA interactions, gene regulation, and more. (thesciencenotes.com)
  • Deciphering protein–protein interactions. (crossref.org)
  • this surface may effect protein-specific interactions. (rcsb.org)
  • The ParB protein forms DNA bridging interactions around parS to condense DNA and earmark the bacterial chromosome for segregation. (elifesciences.org)
  • In cells, they are presumably anchored at parS sites by sequence-specific interactions but must also contain many interactions with non-specific DNA (nsDNA), as well as self-association interactions that bridge ParB protomers to form DNA loops. (elifesciences.org)
  • We developed a new single-molecule method to probe non-specific DNA interactions for two HMGB homologs: the human HMGB2 box A domain and yeast Nhp6Ap, along with chimeric mutants replacin. (shengsci.com)
  • The orientation in which MelR binds to site 2' appears to be determined by MelR-MelR interactions rather than by MelR-DNA interactions. (birmingham.ac.uk)
  • Studying interactions, we noted that all four Id proteins could dimerize with E47 or E2-2, but not with HASH-1 or dHAND. (lu.se)
  • Among the proteins that bind to DNA are transcription factors that activate or repress gene expression by binding to DNA motifs and histones that form part of the structure of DNA and bind to it less specifically. (wikipedia.org)
  • In this study we investigate the feasibility of applying the compatible solute, osmolyte and radiation protector Ectoine (THP(B)), as a scavenger molecule during SAXS measurements of the single-stranded DNA-binding protein Gene-V Protein (G5P/GVP). (rsc.org)
  • Transcription factors help to regulate gene expression-turning genes on or off and dialing up or down their level of activity-often in partnership with the proteins that they bind. (mit.edu)
  • The researchers found that RNA binding keeps transcription factors near their DNA binding sites for longer, helping to fine tune gene expression. (mit.edu)
  • I was looking on Gene Ontology and Protein Databank where I'd expect such informations, but I was unable to find it. (stackexchange.com)
  • We created several deletion mutants of this protein based on its conserved motifs, and from these structures functional chimeras were synthesized, supporting the hypothesis that gene duplication and recombination could lead to novel functional forms of single-stranded DNA-binding proteins. (johnshopkins.edu)
  • Mutations in the gene for cardiac myosin-binding protein C account for approximately 15 percent of cases of familial hypertrophic cardiomyopathy. (nih.gov)
  • The genotypes of these family members were determined, and the clinical status of 212 family members with mutations in the gene for cardiac myosin-binding protein C was assessed. (nih.gov)
  • The clinical expression of mutations in the gene for cardiac myosin-binding protein C is often delayed until middle age or old age. (nih.gov)
  • Delayed expression of cardiac hypertrophy and a favorable clinical course may hinder recognition of the heritable nature of mutations in the cardiac myosin-binding protein C gene. (nih.gov)
  • Neither sister-chromatid exchange nor gene-targeting frequencies show a dependence on these NHEJ proteins. (arizona.edu)
  • The RCC1 gene, a regulator for the onset of chromosome condensation was found to encode a protein with a molecular mass of 45 kD, determined using the antibody against the synthetic peptides prepared according to the amino acid sequence of the putative RCC1 protein. (silverchair.com)
  • The protein encoded by this gene is a nuclear protein that binds the E3 ubiquitin ligase SMURF2. (cancerindex.org)
  • What does this gene/protein do? (cancerindex.org)
  • What pathways are this gene/protein implicaed in? (cancerindex.org)
  • CusabioAlternative Name(s): DsDNA-binding protein A (rpbB)Gene Names: dsbAResearch Areas: Cell. (joplink.net)
  • The search specifically identifies the DNA of the gene that produces the ricin protein. (cdc.gov)
  • The involvement of viral DNA-binding proteins in the regulation of virulence genes, transcription, DNA replication, and repair make them significant targets. (mdpi.com)
  • When transcription factors had their ARMs mutated so they couldn't bind RNA, those transcription factors were less effective in finding their target sites, remaining at those sites and regulating genes. (mit.edu)
  • DNA-dependent transcription of adenovirus genes in a soluble whole-cell extract. (wikidata.org)
  • DSBs usually act as transcriptional factors to regulate the genes' expressions, while SSBs usually play roles in DNA replication, recombination, and repair, etc. (biomedcentral.com)
  • Most unexpectedly, genes coding for similar proteins were found in the genomes of eukaryotes, including humans. (johnshopkins.edu)
  • Survival was generally better than that observed among patients with hypertrophic cardiomyopathy caused by other mutations in the genes for sarcomere proteins. (nih.gov)
  • DNA repair, double strand break repair, and homologous recombination genes are highly correlated with longer maximum lifespan. (foresight.org)
  • Biochemists have a much broader definition of the term that can include any other molecule that forms a functional complex with a protein to serve a useful biological role, even if that ligand is large like another macromolecule (eg. (usanursingessays.com)
  • a sugar/carbohydrate, a lipid, another protein, or even a molecule of DNA or RNA). (usanursingessays.com)
  • Single-molecule kinetics reveal microscopic mechanism by which High-Mobility Group B proteins alter DNA flexibility. (shengsci.com)
  • Bullock and Fersht 8 have shown that mutations of DNA-binding residues, such as those on the tumor repressor protein P53, may predispose individuals to cancer. (nature.com)
  • We found that the three Id proteins expressed in neuroblastoma cells (Id1, Id2, and Id3) were down-regulated during induced differentiation, indicating that Id proteins help keep the tumor cells in an undifferentiated state. (lu.se)
  • DNA-binding proteins are proteins that have DNA-binding domains and thus have a specific or general affinity for single- or double-stranded DNA. (wikipedia.org)
  • The histones form a disk-shaped complex called a nucleosome, which contains two complete turns of double-stranded DNA wrapped around its surface. (wikipedia.org)
  • DNA binding proteins can be classified into double-stranded DNA binding proteins (DSBs) and single-stranded DNA binding proteins (SSBs), and they take part in different biological functions. (biomedcentral.com)
  • There are two kinds of DNAs, single-stranded DNA (ssDNA) and double-stranded DNA (dsDNA). (biomedcentral.com)
  • Accordingly, the DNA binding proteins usually consist of single-stranded DNA-binding proteins (SSBs) and double-stranded DNA-binding proteins (DSBs). (biomedcentral.com)
  • While the deoxyribose phosphate groups of the double-stranded DNA (dsDNA) used for co-crystallization are clearly seen in the electron density map, most of the nucleobases are averaged out. (uni-konstanz.de)
  • Nucleation was found to be initiated at junctions of double-stranded and single-stranded DNA. (cornell.edu)
  • Unlike Rad51, Brh2 was able to promote DNA strand exchange when preincubated with double-stranded DNA. (cornell.edu)
  • Has cohesin ATPase activity, double-stranded DNA binding, topological DNA entrapment activity, role in mitotic cohesin loading and condensed nuclear chromosome, centromeric region, nuclear mitotic cohesin complex localization. (cdc.gov)
  • abstract = "Dps proteins (DNA-binding proteins from starved cells) are multifunctional stress defense proteins from the Ferritin family expressed in Prokarya during starvation and/or acute oxidative stress. (unl.pt)
  • Within chromosomes, DNA is held in complexes with structural proteins. (wikipedia.org)
  • These nucleoprotein complexes act as a positional marker of the origin and earmark this region for segregation in a manner somewhat analogous to eukaryotic centromeres and their binding partners. (elifesciences.org)
  • In particular, the relationship between these dynamic nucleoprotein complexes and the molecular architecture of the ParB protein is unclear and is the subject of the work presented here. (elifesciences.org)
  • In particular, X-ray structures of BEN domain DNA complexes are only known for Drosophila factors bearing a single BEN domain, which lack direct vertebrate orthologs. (bvsalud.org)
  • Another objective of this project will be to investigate by means of NMR the mechanism of reaction of selected Pt(IV)-complexes with other biomolecules such as glutathione and proteins (e.g. albumin), and to determine the effects of light on these reactions. (europa.eu)
  • It is assumed that the Id helix-loop-helix (HLH) proteins act by associating with ubiquitously expressed basic HLH (bHLH) transcription factors, such as E47 and E2-2, which prevents these factors from forming functional hetero- or homodimeric DNA binding complexes. (lu.se)
  • DNA-binding proteins include transcription factors which modulate the process of transcription, various polymerases, nucleases which cleave DNA molecules, and histones which are involved in chromosome packaging and transcription in the cell nucleus. (wikipedia.org)
  • When the ARM binds to HIV RNA, the two molecules form a more stable structure together. (mit.edu)
  • These 'networks' were inferred to be dynamic and poorly-ordered, consisting of several DNA loops between distally bound ParB molecules. (elifesciences.org)
  • Deep sequencing of RNA molecules cross-linked to immunoprecipitated protein particles (CLIP-seq) revealed. (shengsci.com)
  • No evidence was obtained for of Chemistry, Lund University water molecules bound with longer residence times. (lu.se)
  • The RCC1 protein, a regulator for the onset of chromosome condensation locates in the nucleus and binds to DNA. (silverchair.com)
  • Presumably, RCC1 protein plays a role in regulating the onset of chromosome condensation, at the level of transcription or of mRNA maturation. (silverchair.com)
  • Most interestingly, a second single-stranded DNA-binding protein, FacRPA2, in this archaeon exhibited the wrapping mode. (johnshopkins.edu)
  • Biophysical studies show that these architectural HMG proteins bind, bend and loop DNA to perform its biological functions. (wikipedia.org)
  • Biophysical studies showed that the orthologs of the two OB fold/one zinc finger replication protein A in Hethanosarcina acetivorans and Methanopyrus kandleri exhibit two binding modes, wrapping and stretching of DNA. (johnshopkins.edu)
  • Mathematical descriptions of protein-DNA binding taking into account sequence-specificity, and competitive and cooperative binding of proteins of different types are usually performed with the help of the lattice models. (wikipedia.org)
  • Computational methods to identify the DNA binding sequence specificity have been proposed to make a good use of the abundant sequence data in the post-genomic era. (wikipedia.org)
  • The knowledge about DNA-binding residues, binding specificity and binding affinity helps to not only understand the recognition mechanism of protein-DNA complex, but also give clues for protein function annotation. (nature.com)
  • Understanding the binding specificity of a DNA binding protein is helpful for the research of protein functions. (biomedcentral.com)
  • SSB binds with ssDNA with high affinity and low specificity, and is mainly involved in DNA replication, recombination and repair. (biomedcentral.com)
  • Though there are some researches [ 5 - 7 ] on the SSB and DSB respectively, few attentions have been paid on investigating what makes SSB and DSB have such different kind of binding specificity. (biomedcentral.com)
  • The great progress of the structure genomics project [ 9 ] results that more and more high resolution 3D structures for DSBs and SSBs are available now, which makes it possible to investigate the common structural differences between SSB and DSB that are responsible for the binding specificity. (biomedcentral.com)
  • Here we investigated the DNA binding specificity of Brh2 in more detail using oligonucleotide substrates. (cornell.edu)
  • Therefore, a reliable identification of DNA-binding sites in DNA-binding protein is important for protein function annotation, in silico modeling of transcription regulation and site-directed mutagenesis. (nature.com)
  • In the meantime, the investigation results can help to annotate or refine the annotation of the proteins with known structures yet unknown or not fully understood functions. (biomedcentral.com)
  • Eukaryotic High-Mobility Group B (HMGB) proteins alter DNA elasticity while facilitating transcription, replication and DNA repair. (shengsci.com)
  • We describe an improved model of DNA replication in Xenopus egg extracts, in which a circular plasmid immobilized on paramagnetic beads is used as a template. (shengsci.com)
  • eight defects (insertions, deletions, and splice mutations) were predicted to truncate cardiac myosin-binding protein C. The clinical expression of either missense or truncation mutations was similar to that observed for other genetic causes of hypertrophic cardiomyopathy, but the age at onset of the disease differed markedly. (nih.gov)
  • Scope includes mutations and abnormal protein expression. (cancerindex.org)
  • The bowhead whale is much better at avoiding DNA mutations. (foresight.org)
  • CHD6 is a DNA-dependent ATPase and localizes at nuclear sites of mRNA synthesis. (nih.gov)
  • It shares homology with the mating-type protein, Mc, from the fission yeast Schizosaccharomyces pombe and a conserved DNA-binding motif present in the nuclear high-mobility-group proteins HMG1 and HMG2. (nih.gov)
  • However, analogous proteins may have structural homology although this is not a prerequisite. (hindawi.com)
  • hi, I try to purify a protein from yeast to assay some structural studies. (bio.net)
  • This means that the structural changes of (bio-)polymers, such as proteins and DNA, can be monitored in situ to understand their sensitivity to changes in chemical environments. (rsc.org)
  • Now that the molecular structure determines its biological function, structural information is expected to provide insight on the binding mechanism of SSB or DSB. (biomedcentral.com)
  • Structural analysis of the C-terminal domain reveals a dimer with a lysine-rich surface that binds DNA non-specifically and is essential for DNA condensation in vitro. (elifesciences.org)
  • Distinct structural bases for sequence-specific DNA binding by mammalian BEN domain proteins. (bvsalud.org)
  • Finally, comparison with our previous invertebrate BEN structures, along with additional structural predictions using AlphaFold2 and RoseTTAFold, reveal distinct strategies for target DNA recognition by different types of BEN domain proteins . (bvsalud.org)
  • Together, these studies expand the DNA recognition activities of BEN factors and provide structural insights into sequence-specific DNA binding by mammalian BEN proteins . (bvsalud.org)
  • instead, it binds RNA from a region called an arginine-rich motif (ARM) that is unstructured but has a high affinity for RNA. (mit.edu)
  • This hitherto unseen mode of DNA binding by TrmBL2 seems to arise from nonoptimal protein-DNA contacts made by its four HTH domains resulting in a low-affinity, nonspecific binding to DNA. (uni-konstanz.de)
  • The presence of the conserved and tailored Z-DNA-binding surface, which interacts specifically with the zigzag backbone and syn base diagnostic of the Z-form, reinforces the importance to poxvirus infection of the ability of this protein to recognize the Z-conformation. (rcsb.org)
  • Upon binding, this complex translocates to the cytoplasm, where it interacts with TGF-beta receptor type-1 (TGFBR1), leading to the degradation of both the encoded protein and TGFBR1. (cancerindex.org)
  • It interacts also with anticoagulant protein S and with serum amyloid P component. (lu.se)
  • We have successfully combined two unrelated naturally occurring binding sites, the immunoglobin Fc-binding site of the Z domain and the DNA-binding motif of MyoD bHLH, into a novel stable protein. (hindawi.com)
  • I am a computer scientist and we are working on protein function prediction algorithms. (stackexchange.com)
  • 2019), wondered if healthy alpha-synuclein help repair DNA damage caused by double-strand breaks (DSBs). (parkinson.org)
  • They also found that the healthy human cells repaired DSBs more rapidly compared to the knock-out cells, again supporting the role of alpha-synuclein in aiding DNA repair. (parkinson.org)
  • Next, researchers used a strong laser, which they knew would damage the DNA and cause DSBs, to see if healthy alpha-synuclein are recruited there to help seal the breaks. (parkinson.org)
  • In both human cells in a dish (in vitro) and living mouse brains (in vivo) alpha-synuclein was present in the exact same location as the DNA repair proteins, suggesting alpha-synuclein binds directly to DSBs, and helps repair those breaks. (parkinson.org)
  • In both healthy human cells and living mouse brains, the laser-induced DSBs, triggered alpha-synuclein to move to the site of DNA damage. (parkinson.org)
  • In diseased human cells and mice carrying the abnormal form of alpha-synuclein, the laser-induced DSBs, impaired alpha-synuclein from moving to the site of DNA damage. (parkinson.org)
  • The ataxia telangiectasia Rad3-related (ATR) protein responds to UV damage, whereas the ataxia telangiectasia mutated (ATM) protein responds to double-strand breaks (DSBs) caused by ionizing radiation and radiomimetic compounds. (medscape.com)
  • VH is derived from a single protein domain of 35 residues [ 9 ]. (hindawi.com)
  • Protein sequence information mainly consists of amino acid residue composition, biochemical features of amino acid residues and evolutionary information in terms of position-specific scoring matrices (PSSM). (nature.com)
  • The MelR derivatives were purified, and the cysteine residues were tagged with p-bromoacetamidobenzyl-EDTA-Fe, an inorganic DNA cleavage reagent. (birmingham.ac.uk)
  • 20%-21% protein sequence homology. (cdc.gov)
  • Computational design of novel proteins with well-defined functions is an ongoing topic in computational biology. (hindawi.com)
  • There is an urgent need for computational tools that can rapidly and reliably identify DNA-binding sites in DNA-binding proteins. (nature.com)
  • Therefore, a computational method is required to annotate the DNA binding protein as DSB or SSB automatically. (biomedcentral.com)
  • Sequence-specific DNA-binding proteins generally interact with the major groove of B-DNA, because it exposes more functional groups that identify a base pair. (wikipedia.org)
  • Bacteria often can't support over-expression needed to get workable quantities of protein for an assay, and in vitro expression often can't synthesize a fully functional transcription factor. (genomeweb.com)
  • The candidate encoding the longest RBD variant (VB2060) demonstrated high secretion of a functional protein and induced rapid and dose-dependent RBD IgG antibody responses that persisted up to at least 3 months after a single dose of the vaccine in mice. (biorxiv.org)
  • Whereas the polypeptide serving this function in bacteria contains one OB fold, the eukaryotic functional homolog comprises a complex of three proteins, each harboring at least one OB fold. (johnshopkins.edu)
  • Domain analysis of this protein, which contains a single OB fold, showed that its architecture is similar to the functional homologs thought to be unique to the Crenarckaeotes. (johnshopkins.edu)
  • Polymerase chain reaction: locates and makes copies of parts of the DNA contained in the castor bean plant. (cdc.gov)
  • In convergent evolution, nonhomologous proteins evolve in separate biological contexts to catalyze the same or similar reactions. (hindawi.com)
  • In vitro selection data revealed sequence-specific binding activities of isolated BEN domains from all of these factors. (bvsalud.org)
  • We utilized this reaction to determine the amount of cysteine-bound styrene-7,8-oxide (SO) which reacted with Hb in vitro and in vivo. (cdc.gov)
  • In vitro synthesis of variola virus DNA exceeding a designated length requires explicit authorization by WHO, as does mutagenesis of orthopoxvirus DNA, larger than a designated length, with the aim of producing the corresponding variola virus sequence. (who.int)
  • All members of the AraC family contain two helix-turn-helix (HTH) motifs that contact two segments of the DNA major groove at target sites on the same DNA face. (birmingham.ac.uk)
  • In this work, we have studied the binding of MelR to different sites at the melAB promoter, focusing on the orientation of binding of the two MelR HTH motifs, and the juxtaposition of the different bound MelR subunits with respect to each other. (birmingham.ac.uk)
  • Patterns of DNA cleavage after MelR binding were then used to determine the positions of the two HTH motifs at target sites. (birmingham.ac.uk)
  • These proteins are important in bending arrays of nucleosomes and arranging them into the larger structures that form chromosomes. (wikipedia.org)
  • Typical RNA binding domains form stable structures that researchers can detect or predict with current technologies. (mit.edu)
  • Transcription factors do not contain such structures, and so standard searches for RNA binding domains had not identified them in transcription factors. (mit.edu)
  • Specifically, these methods were used to ascertain how the presence of bound Ni2+ ions affects the stability of the known open, cis, and trans forms observed in the crystal structures of this protein as well as their interconversion capability. (sissa.it)
  • The telomeres are the DNA-protein structures at the ends of eukaryotic chromosomes, which serve to protect and stabilize the genome. (lu.se)
  • Nucleotides for which water-mediated pro- tein-DNA contacts with the bases were observed in the co-crystal structures are encircled with a continuous line. (lu.se)
  • Besides shielding bacterial DNA through binding and condensation, Dps proteins protect the cell from reactive oxygen species by oxidizing and storing ferrous ions within their cavity, using either hydrogen peroxide or molecular oxygen as the co-substrate, thus reducing the toxic effects of Fenton reactions. (unl.pt)
  • We show here that while the central DNA binding domain is essential for anchoring at parS , this interaction is not required for DNA condensation. (elifesciences.org)
  • have shown that binding of DNA by ParB is accompanied by condensation. (elifesciences.org)
  • It functions in repair of DNA by homologous recombination by controlling the action of Rad51. (cornell.edu)
  • We therefore focus on elucidating the roles of the telomere binding proteins in this process. (lu.se)
  • Several tissue-specific bHLH proteins, including HASH-1, dHAND, and HES-1, are important for development of the nervous system. (lu.se)
  • HMGA proteins and NAMPT promote the proinflammatory SASP through NAD + -mediated suppression of AMPK kinase, which suppresses the p53-mediated inhibition of p38 MAPK to enhance NF-κB activity. (nature.com)
  • Attempts to synthesize full-length variola virus genomes or infectious variola viruses from smaller DNA fragments remain strictly prohibited. (who.int)
  • A study published in Nature, "Alpha-synuclein is a DNA binding protein that modulates DNA repair with implications for Lewy body disorders" (Schaser et al. (parkinson.org)
  • We here describe the development of novel COVID-19 DNA plasmid vaccines encoding homodimers consisting of a targeting unit that binds chemokine receptors on antigen-presenting cells (human MIP-1α /LD78β), a dimerization unit (derived from the hinge and C H 3 exons of human IgG3), and an antigenic unit (Spike or the receptor-binding domain (RBD) from SARS-CoV-2). (biorxiv.org)
  • Binding of the Escherichia coli MelR protein to the melAB promoter: orientation of MelR subunits and investigation of MelR-DNA contacts. (birmingham.ac.uk)
  • The Escherichia coli MelR protein is a melibiose-triggered transcription factor, belonging to the AraC family, that activates transcription initiation at the melAB promoter. (birmingham.ac.uk)
  • The Smad7 protein is negative regulator of the TGF-β signaling pathway, which is upregulated in patients with breast cancer. (cancerindex.org)
  • DNA-binding proteins can incorporate such domains as the zinc finger, the helix-turn-helix, and the leucine zipper (among many others) that facilitate binding to nucleic acid. (wikipedia.org)
  • The dimers follow the prototypical design of known bacterial repressors with two helix-turn-helix (HTH) domains binding to successive major grooves of the DNA. (uni-konstanz.de)
  • In terms of predicting where in the genome the transcription factors bind, the models we're able to derive seem to be, in general, actually better than the other assays. (genomeweb.com)
  • Here, we characterize several mammalian BEN domain (BD) factors, including from two NACC family BTB-BEN proteins and from BEND3, which has four BDs. (bvsalud.org)
  • Control of eukaryotic messenger RNA synthesis by sequence-specific DNA-binding proteins. (wikidata.org)
  • A critical aspect in the control appears to be the recruitment of Rad51 to single-stranded DNA regions exposed as lesions after damage or following a disturbance in DNA synthesis. (cornell.edu)
  • Cells continuously monitor protein synthesis to prevent accumulation of aberrant polypeptides. (shengsci.com)
  • DNA synthesis occurred on either circular or linear plasmids coupled to the beads, but only DNA synthesis on the circular plasmid was inhibited by geminin and a. (shengsci.com)
  • For this task you will investigate the interaction between a particular protein and its ligand to learn how the complex formed carries out a useful biological function. (usanursingessays.com)
  • You will research the scientific literature to gather information about the protein, its ligand and the interaction between them, and then use this information to write a 1200-word report on the major features of the protein-ligand complex and its biological function. (usanursingessays.com)
  • Several experimental techniques have been proposed to identify the DNA-binding sites and investigate the interaction modes between proteins and DNAs. (nature.com)
  • You are expected to delve into the interaction at the molecular level, ideally to describe exactly which amino acid residue(s) of the protein are directly involved in forming the protein-ligand complex, i.e. to explain how the interaction occurs. (usanursingessays.com)
  • You are free to investigate a protein-ligand interaction of your own choosing and that you find interesting. (usanursingessays.com)
  • Bowhead Whale - Lives for 211 years, 40 ton body mass, and has much better non-homologous end joining (NHEJ) DNA repair efficiency. (foresight.org)
  • This alters the accessibility of the DNA template to the polymerase. (wikipedia.org)
  • Mutation of either the dimerisation or the DNA binding interface eliminates ParB-GFP foci formation in vivo. (elifesciences.org)
  • In order to simplify our analysis, we exploited an engineered derivative of the melAB promoter in which MelR binding to site 2 and site 2', in the absence of CRP, is sufficient for transcription activation. (birmingham.ac.uk)
  • Our results show that MelR binds as a direct repeat to site 2 and site 2' with the C-terminal HTH located towards the promoter-proximal end of each site. (birmingham.ac.uk)
  • In differentiating neuroblastoma cells, HASH-1 is down-regulated, and there is coincident up-regulation of the transcriptional repressor HES-1, which is known to bind the HASH-1 promoter. (lu.se)
  • Despite these recent experiments converging on DNA bridging models to explain the ParB spreading phenomenon, the mechanism underpinning this behaviour remains unresolved. (elifesciences.org)
  • Because my protein is a DNA binding protein, I think that I lost some proteins fixed on genomic DNA that are found in the pellet during the step of clarification just after breaking cells. (bio.net)
  • The disorders are characterized by a defect in DNA repair mechanisms or genomic stability, and patients with these disorders show increased predisposition to cancer. (medscape.com)
  • The 95 amino acid residue protein contains a winged helix DNA-binding domain with an extended C-terminal alpha-helix that leads to dimerization by forming a two-stranded, antiparallel coiled-coil rod. (rcsb.org)
  • The reason that researchers had not recognized transcription factors' RNA binding region as such is because it is not a typical RNA binding domain. (mit.edu)
  • Here, we describe the crystal structure of the Zalpha domain from the E3L-like protein of Yaba-like disease virus, a Yatapoxvirus, in a complex with Z-DNA, solved at a 2.0-A resolution. (rcsb.org)
  • Moreover, the free C-terminal domain can rapidly decondense ParB networks independently of its ability to bind DNA. (elifesciences.org)
  • Our work reveals a dual role for the C-terminal domain of ParB as both a DNA binding and bridging interface, and highlights the dynamic nature of ParB networks in Bacillus subtilis . (elifesciences.org)
  • However, the most common form is a protein with two OB folds and one zinc finger domain. (johnshopkins.edu)
  • AFUA_2G16480 domain(s) with predicted zinc ion binding activity. (cdc.gov)
  • The BEN domain is a recently recognized DNA binding module that is present in diverse metazoans and certain viruses . (bvsalud.org)
  • Ortholog in C. albicans is ENP2 , encodes an protein. (cdc.gov)