CharacterizationAffinity ChromatographyIsolationGenesAssaysPlasmidEukaryoticXenopusGenomicVitroGeneSynthesisReplicationChromosomal ProteinsMetabolismTightlyNucleic acidsPolymeraseLyse cellsInteractsInhibitorsAntibodiesEscherichiaSequencesChromatinPrecipitatesComplexesSingle strandedDouble-strandedAssayAmino AcidsInteractionsConformationExpressionFunctionallyFractionsMass spectrometryHPLCProteomic analysisSpecificityNuclearRecombinant proteinMoleculesReceptorsLipidsMutationsHomeodomainAntibody1993EnzymesGenomeSpermidineTranscription factorMembraneKinaseLund UniversityInsolubleAquaporinMonarchFunctionalInteractionExtractionChromatographyTranscriptional activityDetectBacterialPhosphorylationActivatesEnzymePhosphate backboneMethylation changes
Characterization3
- Characterization of DNA recognition by the human UV-damaged DNA-binding protein. (ncl.edu.tw)
- Purification and characterization of a transcription factor that confers promoter specificity to human RNA polymerase I. (wikidata.org)
- Purification and characterization of two protein kinases acting on the aquaporin SoPIP2;1. (lu.se)
Affinity Chromatography3
- The endogenous and transduced Thap1 isoforms were characterized using three different commercially available anti-Thap1 antibodies and validated by immunoprecipitation and DNA oligonucleotide affinity chromatography. (biomedcentral.com)
- Geminin antibody was purified from mouse ascitic fluids by protein-G affinity chromatography. (prospecbio.com)
- The ability of protein A affinity chromatography to achieve 95% purity in one simple step was the runway that got recombinant immunotherapy off the ground and made it available to millions. (bioprocessintl.com)
Isolation3
- Identification and isolation of damage-recognition protein complexes from zebrafish(Danio rerio) early embryos. (ncl.edu.tw)
- Isolation and structure of repressor-like proteins from the archaeon Sulfolobus solfataricus. (ox.ac.uk)
- Preparing plasmid DNA depends on many time-consuming steps during cloning and large amounts of DNA isolation. (jove.com)
Genes15
- We report here that SRE1, a gene encoding a GATA-type protein, bound to promoter sequences of genes involved in siderophore biosynthesis. (nih.gov)
- The loss of iron led to a approximately 2.5-fold decrease in DNA-binding affinity, indicating that iron was directly involved in SRE1 regulation of iron-uptake genes. (nih.gov)
- 8 The MeCP2 protein, initially characterized by its ability to bind single methylated CG nucleotides, 9 plays a significant role in the transcriptional silencing of genes. (neurology.org)
- 1997. Interaction between Ustilago maydis REC2 and RAD51 genes in DNA repair and mitotic recombination. . (cornell.edu)
- Moreover the ChIP technology has facilitated identification of transcription factors (TFs) based on the overrepresentation of their binding sites at target androgen-regulated genes ((23 24 Major functional insights into the transcriptional program directed by AR and ancillary TFs in prostate tumor cells and tissues have been (S)-Timolol maleate obtained through ChIP followed by sequencing experiments (25). (researchensemble.com)
- Although HMG proteins do not possess intrinsic transcriptional activity, they are called architectural transcription factors because they modulate the transcription of their target genes by altering the chromatin structure at the promoter and/or enhancers 15 . (nature.com)
- The Lhx1 transcription factor plays several roles during embryogenesis, regulating target genes expression by forming multiprotein complexes with LIM binding protein 1 (Ldb1). (bvsalud.org)
- This analysis yielded a list of prospective organizer genes, and we determined the role of six-transmembrane domain containing transmembrane protein 150b (Tmem150b) in organizer function. (bvsalud.org)
- This study applies knowledge from structural and evolutionary studies of the rice NLR protein Pik-1 and cognate effector protein AVR-Pik to engineering of new disease resistance genes. (elifesciences.org)
- Many of the characterized resistance (R) genes used to confer disease resistance in crop breeding programs encode NLR proteins ( Kourelis and van der Hoorn, 2018 ). (elifesciences.org)
- Recently, we showed that linear DNA can be much better protected in lysates from cells knocked out for exonuclease genes ( recBCD ) 10 . (jove.com)
- Alvarez JD, Yasui DH, Niida H, Joh T, Loh DY, Kohwi-Shigematsu T. The MAR-binding protein SATB1 orchestrates temporal and spatial expression of multiple genes during T-cell development. (bdbiosciences.com)
- A unique feature of our uranium sensor is that it contains a small piece of DNA, the same basic building blocks of our genes,' said Lu, who also is a researcher at the university's Beckman Institute for Advanced Science and Technology, and at the Center of Advanced Materials for the Purification of Water with Systems. (nanowerk.com)
- Below is a non-exhaustive list of in-house infrastructures that are categorized into three overarching themes: bio-imaging, proteins, genes & cells and other resources. (lu.se)
- In addition to infrastructures for bioimaging, protein and genes & cells, we also provide other resources e.g., databases, networks and specialized labs. (lu.se)
Assays8
- For cohesion assays, demembranated sperm nuclei are incubated in interphase extract, where they undergo rapid and synchronous DNA replication and cohesion establishment through the recruitment of proteins and other factors (e.g., nucleotides) from the extract. (nih.gov)
- Such assays can be used to study binding affinity and recruitment specificity of either recombinant or cellular proteins [ 27 , 28 ]. (biomedcentral.com)
- Protein Expression and Purification, Computational Modeling, Molecular Dynamic Simulations, X-ray Crystallography, Enzyme Activity and Enzyme Inhibition Assays, Structure Aided Drug Design. (umassmed.edu)
- The Qproteome Nuclear Protein Kit delivers a nucleic acid binding protein fraction suitable for a wide range of activity assays. (qiagen.com)
- Across the patient journey from initial detection, to treatment and then monitoring, there are several points where DNA methylation assays can inform clinical practice. (frontiersin.org)
- The ability of circulating tumor DNA liquid biopsy assays to monitor cancer in situ also allows for the ability to monitor response to therapy, to detect minimal residual disease and as an early biomarker for cancer recurrence. (frontiersin.org)
- Historically the proteomic screens carried out to expand the AR-interactome have been restricted to PPI assays designed to detect novel binding proteins through direct or indirect interactions with AR in the absence of a DNA template (27). (researchensemble.com)
- Recently we have implemented an in vitro assay that functionally resembles the DNA repair reaction and assays to study protein-protein and protein-DNA interactions. (uu.nl)
Plasmid11
- The miniF plasmid C protein: sequence, purification and DNA binding. (shengsci.com)
- The C protein has been purified from cells carrying the Ptrp-C plasmid, and a preliminary study of C protein-DNA binding properties has been carried out. (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)
- 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)
- QIAcard FTA CloneSaver card is designed in a 96-well format for the collection, long-term storage and purification of plasmid and BAC DNA from bacterial clones. (qiagen.com)
- Using linear DNA templates for CFPS will further enable the technology to reach its full potential, decreasing the experimental time by eliminating the steps of cloning, transformation, and plasmid extraction. (jove.com)
- All these strategies cost extra time and resources and are yet to obtain near-plasmid levels of protein expression. (jove.com)
- This method is able to achieve protein expression levels comparable to that from plasmid DNA in E. coli CFPS. (jove.com)
- On the other hand, PCR amplification from a plasmid, or a synthesized DNA template, can be used to simply prepare CFPS templates within a few hours 2 , 3 . (jove.com)
- In vitro synthesis of RNA requires a purified DNA plasmid, purified RNA polymerase, metal-ion enzyme cofactors, and raw-material nucleotides. (bioprocessintl.com)
- Plasmid preparations can be contaminated with host DNA, RNA, and proteins. (bioprocessintl.com)
Eukaryotic6
- Eukaryotic High-Mobility Group B (HMGB) proteins alter DNA elasticity while facilitating transcription, replication and DNA repair. (shengsci.com)
- Extrachromosomal circular DNA (eccDNA) is both a driver of eukaryotic genome instability and a product of programmed genome rearrangements, but its extent had not been surveyed in Oxytricha, a ciliate with elaborate DNA elimination and translocation during development. (shengsci.com)
- The DNA damage-recognition problem in human and other eukaryotic cell: the XPA damage binding protein. (ncl.edu.tw)
- In the eukaryotic cell nucleus, chromatin is the physiological template of all DNA-dependent processes including transcription. (nature.com)
- Thus, the existence of repressor-like proteins was demonstrated at the protein level in archaea, raising the question of structural and functional consequences of these proteins on the otherwise eukaryotic-like basal transcriptional machinery in archaea. (ox.ac.uk)
- Many MADS domain proteins have been found in species from all eukaryotic kingdoms. (bvsalud.org)
Xenopus5
- Endogenous MeCP2 and MBD3 were precipitated from Xenopus oocyte extracts and conditions for methylation-specific binding were optimized. (biomedcentral.com)
- For a reverse experiment, DNA methylation in early Xenopus embryos was assessed by MBD affinity capture. (biomedcentral.com)
- By tandem- affinity purification from kidney-induced Xenopus animal caps, we identified single-stranded DNA binding protein 2 (Ssbp2) interacts with the Ldb1-Lhx1 complex. (bvsalud.org)
- To identify new potential key factors of the organizer, we performed complementary DNA (cDNA) microarray screening using organizer-mimicking Xenopus laevis tissue. (bvsalud.org)
- Injected intravenously into adult Xenopus females, the protein-DNA complex is rapidly transported through the bloodstream and, within the ovary, the vitellogenin ligand present in the protein binds to the receptors at the surface of the oocytes. (biologists.com)
Genomic7
- Genomic sites of DNA methylation can be bound by methyl-CpG-binding domain proteins (MBDs) and specific zinc finger proteins, which can recruit co-repressor complexes to silence transcription on targeted loci. (biomedcentral.com)
- The quality of the Genomic DNA Mini Kits for Blood and Cultured Cells is tested on a lot-to-lot basis by isolating genomic DNA from 200 µl of whole human blood. (primelabmed.com)
- The Genomic DNA Mini Kits for Blood and Cultured Cells provide a fast and economical method for the purification of total DNA (including genomic, mitochondrial, and viral DNA) from fresh whole blood, plasma, serum, buffy coat, other bodily fluids, lymphocytes bacteria, and cultured cells. (primelabmed.com)
- Bannoehr J, Zakour NL, Reglinski M, Inglis N: Genomic and surface proteomic analysis of the canine pathogen Staphylococcus pseudintermedius reveals protein that mediate adherence to the extracellular matrix. (srcpathway.com)
- What is the maximum binding capacity of the Monarch® Genomic DNA Purification Kit columns? (neb.com)
- The column matrix will bind 25-30 µg of genomic DNA (gDNA), although in some cases greater yields have been observed. (neb.com)
- Specific genomic DNA segments that interact with the nuclear matrix are called scaffold or matrix attachment regions (SARs or MARs). (bdbiosciences.com)
Vitro4
- The relative molecular mass (M r ) of authentic exogenous Thap1 was previously established by in vitro translation of recombinant c-Myc-tagged human Thap1 protein from a human THAP1 cDNA. (biomedcentral.com)
- In an effort to more completely define the AR-interactome and identify proteins that can bind DNA either directly or indirectly we performed a quantitative proteomic screen for androgen-sensitive proteins that copurify with the proximal (S)-Timolol maleate promoter of the model androgen-regulated rat gene in vitro. (researchensemble.com)
- We demonstrate that the extended recognition profiles of engineered Pikp-1 variants correlate with effector binding in planta and in vitro, and with the gain of new contacts across the effector/HMA interface. (elifesciences.org)
- To search for the unique sequence of DNA that could distinguish uranyl from other metal ions, the researchers used a combinatorial approach called in vitro selection. (nanowerk.com)
Gene14
- The cohesin complex tethers the identical copies of each chromosome, called sister chromatids, together following DNA replication and promotes normal interphase chromosome structure and gene expression. (nih.gov)
- Spermidine is also used, along with calcium chloride, for precipitating DNA onto microprojectiles for bombardment with a gene gun. (wikipedia.org)
- Rett syndrome (RTT) is a neurodevelopmental disorder caused by mutations in the X-linked methyl CpG binding protein 2 ( MeCP2 ) gene. (neurology.org)
- 7 The Rett gene was recently identified as the methyl CpG binding protein 2 ( MeCP2 ) gene. (neurology.org)
- The goal of this study was to examine the nature and expression pattern of the protein product(s) of the Thap1 transcription factor ( DYT6 gene) in mouse neurons, and to study the regional and developmental distribution, and subcellular localization of Thap1 protein. (biomedcentral.com)
- 1999. Targeted gene repair directed by the chimeric RNA/DNA oligonucleotide in a mammalian cell-free extract. . (cornell.edu)
- 1994. The REC2 gene encodes the homologous pairing protein of Ustilago maydis. . (cornell.edu)
- The 14/SATB1 monoclonal antibody specifically binds to the special AT-rich sequence binding protein 1 that is encoded by the SATB1 (SATB homeobox 1) gene. (bdbiosciences.com)
- Although, the number of omic techniques is ever expanding, the most developed omics technologies are high throughput DNA sequencing, transcriptomics (focused on gene expression), epigenomics (focused on epigenetic regulation of gene expression), proteomics (focused on large sets of proteins, the proteome) and metabolomics (focused on large sets of metabolites, the metabolome). (who.int)
- The ABCD4 gene provides instructions for making a protein that is involved in the conversion of vitamin B12 (also known as cobalamin) into one of two molecules, adenosylcobalamin (AdoCbl) or methylcobalamin (MeCbl). (medlineplus.gov)
- In the lysosomal membrane, the ABCD4 protein interacts with another protein called LMBD1 (produced from the LMBRD1 gene). (medlineplus.gov)
- ABCD4 gene variants involved in this condition lead to production of an abnormal ABCD4 protein that is unable to function. (medlineplus.gov)
- There were two different mismatches in the probe target sites of the HA gene sequences of all isolates ( n = 23) with additional mismatches only at position 7 (template binding site) identified for all eight negative real-time RT-PCR isolates. (who.int)
- Berry intake changes hepatic gene expression and DNA methylation patterns associated with high-fat diet. (lu.se)
Synthesis4
- Cells continuously monitor protein synthesis to prevent accumulation of aberrant polypeptides. (shengsci.com)
- This is a fast, easy, and direct approach for expression in cell-free protein synthesis systems using linear DNA templates. (jove.com)
- Cell-free protein synthesis (CFPS) has recently become very popular in the field of synthetic biology due to its numerous advantages. (jove.com)
- Cell-free protein synthesis (CFPS) systems are increasingly being used as a fast, simple, and efficient method for biosensor engineering, decentralized manufacturing, and prototyping of genetic circuits 1 . (jove.com)
Replication12
- Extract prepared from unfertilized eggs is arrested by the presence of cytostatic factor (CSF) in a state with high levels of M-phase kinase activity, but can be stimulated to enter interphase, in which DNA replication occurs spontaneously. (nih.gov)
- In analyzing the stability of DNA replication origins in Saccharomyces cerevisiae we faced the question whether one set of sequences is significantly enriched in the number and/or the quality of the matches of a particular position weight matrix relative to another set. (biomedcentral.com)
- In analyzing the stability of DNA replication origins in S. cerevisiae (see Stable vs. unstable ARSs in mcm1-1 mutant below) we faced the question of whether one set of sequences has more and/or better binding sites of a particular transcription factor than the other. (biomedcentral.com)
- DNA replication is a fundamental process essential for cell proliferation. (biomedcentral.com)
- During DNA replication, recombination and DNA repair, double-stranded DNA frequently forms three- or four-way junctions, bubbles, flaps or broken ends with single-stranded extensions. (uu.nl)
- Geminin is a 25 kDa nuclear protein, which inhibits DNA replication and is degraded during the mitotic phase of the cell cycle. (prospecbio.com)
- Geminin controls replication by binding to the licensing factor Cdt1, and is involved in neural differentiation. (prospecbio.com)
- Geminin can also promote DNA replication. (prospecbio.com)
- Geminin has 2 roles in 2 different stages of the cell cycle: Geminin is a negative regulator of DNA replication during the "S phase" of the cell cycle. (prospecbio.com)
- During the "M phase" of the cell cycle (mitosis) Geminin stabilizes the replication factor Cdt1 promoting DNA replication during the next cell cycle. (prospecbio.com)
- Moreover, inhibition of Geminin during mitosis (by RNAi) causes destabilization of Cdt1 protein and impairment of DNA replication during the next cell cycle. (prospecbio.com)
- 大腸菌 / DNA複製 / DNA replication / DNAポリメラーゼ / ATP / DnaA / Escherichia coli / DnaA protein / 細胞分裂 / Fプラスミド / 細胞周期 / ゲノム自己増殖の終結 / ゲノム自己増殖の開 (nii.ac.jp)
Chromosomal Proteins1
- Epigenetics acts through two mechanisms: (1) modifications to chromosomal proteins that alter the 3D conformation of the genome and/or protein-DNA interactions and (2) chemical modification of the DNA strand itself ( Kondo, 2009 ). (frontiersin.org)
Metabolism1
- Muscleblind-like proteins (MBNLs) are regulators of RNA metabolism. (shengsci.com)
Tightly5
- Some enzymes may bind tightly to the substrate DNA. (neb.com)
- With FTA, the DNA remains tightly bound while proteins and inhibitors are washed from the matrix. (qiagen.com)
- Proteins remain tightly bound while DNA is eluted from the matrix. (qiagen.com)
- Histone modifications can lead to either tightly packed and inactive conformations or open and accessible DNA (termed heterochromatin and euchromatin respectively). (frontiersin.org)
- The newly developed oocyte shuttle protein contains a streptavidin moiety that tightly binds biotinylated DNA. (biologists.com)
Nucleic acids2
- engineering proteins, nucleic acids, or nanomaterials with novel structures, dynamics, and functions for basic biology/biomedical applications and effective therapeutic approaches. (umassmed.edu)
- FTA Elute Indicating cards are designed for room temperature collection, shipment, preservation and purification of nucleic acids from biological samples for PCR analysis. (qiagen.com)
Polymerase2
- Further molecular studies of selected androgen-sensitive adaptor proteins showed that they were functionally linked to the expression to promoter DNA template The pCMV-myc-vector (S)-Timolol maleate was PCR amplified using the Advantage GC-2 polymerase (Clonetech) with biotinylated primers biotinylated dATP and normal dCTP dGTP and dTTP (New England Biolab). (researchensemble.com)
- Simple and cost-effective, the selection process can sample a very large pool of DNA (up to 1,000 trillion molecules), amplify the desired sequence by the polymerase chain reaction, and introduce mutations to improve performance. (nanowerk.com)
Lyse cells3
- The method uses chaotropic salt to lyse cells and degrade proteins. (primelabmed.com)
- FTA technology consists of two distinct chemistries, both with the ability to lyse cells on contact, denature proteins and protect DNA from degradation. (qiagen.com)
- The FTA Elute cards contain a chaotropic salt to lyse cells on contact, denature proteins and protect DNA from degradation. (qiagen.com)
Interacts2
- The Thap1 DNA binding domain (DBD) interacts with an 11-nucleotide consensus sequence 5´-TxxxGGCA-3´ in a target motif known as THABS (Thap1-binding sequence). (biomedcentral.com)
- In addition, Geminin directly interacts with Six3 and Hox homeodomain proteins during embryogenesis and inhibits their functions. (prospecbio.com)
Inhibitors4
- With FTA Elute, proteins and PCR inhibitors (e.g., hemoglobin) remain at the FTA Elute matrix while DNA is eluted from the matrix. (qiagen.com)
- Further purification of the eluted DNA may be required in some samples because PCR inhibitors may not be completely removed using the described procedure. (cdc.gov)
- There are several strategies that have been proposed to tackle this problem, such as adding nuclease inhibitors or chemical modification of linear DNA ends for protection. (jove.com)
- The identification of novel, high affinity AQP9 inhibitors in an intracellular binding site. (lu.se)
Antibodies2
- In this study, we show that antibodies against RVFV N protein can be detected from dried blood spot (DBS) samples being assayed by multiplex bead assay. (cdc.gov)
- Here we describe the coupling of the C. parvum recombinant antigens to carboxylated polystyrene beads, the data acquisition and analysis of IgG antibodies bound to the coupled beads, and the quality control methods required for data validation using the Luminex/MBA system. (cdc.gov)
Escherichia1
- We present the preparation steps of cell lysate from Escherichia coli BL21 Rosetta2 ΔrecBCD strain by sonication lysis and buffer calibration for Mg-glutamate (Mg-glu) and K-glutamate (K-glu) specifically for linear DNA. (jove.com)
Sequences5
- C protein binds strongly to pifO, and weakly to sequences in the ori-1 region. (shengsci.com)
- None of these however directly apply to our problem, where the null assumption is that there is "essentially" no difference in the binding sites between the two input sets, even though both might be enriched, deficient, or neutral in sites when compared to "background" sequences. (biomedcentral.com)
- 1986. Homologous pairing of DNA molecules by Ustilago rec1 protein is promoted by sequences of Z-DNA. . (cornell.edu)
- Sequence analysis of five tryptic peptides revealed that their sequences matched corresponding sequences of the A2 protein of the heterogeneous nuclear ribonucleoprotein (hnRNP) complex. (jci.org)
- It recognizes ATC sequences that consist of stretches of A's, T's, and C's on one DNA strand. (bdbiosciences.com)
Chromatin7
- Epigenetics of a tandem DNA repeat: chromatin DNaseI sensitivity and opposite methylation changes in cancers. (shengsci.com)
- DNA methylation and chromatin DNaseI sensitivity were analyzed in and adjacent to D4Z4 repeat arrays, which consist of 1 to approximately 100 tandem 3.3-kb units at subtelomeric 4q and 10q. (shengsci.com)
- modulation by chromatin associated proteins. (cornell.edu)
- In addition to nucleosomes, chromatin contains non-histone chromatin-associated proteins, of which the high-mobility group proteins are the most abundant. (nature.com)
- Chromatin-mediated regulation of transcription involves DNA methylation and histone modifications. (nature.com)
- Our data support the concept that chromatin opening during transcriptional initiation involves intermediates with DNA breaks that subsequently require DNA repair mechanisms to ensure genome integrity. (nature.com)
- The histone chaperone FACT (facilitates chromatin transcription) is a heterodimeric complex, consisting of SUPT16 and SSRP1 (Spt16 and Pob3 in yeast) that is responsible for the deposition of H2A/H2B-dimers onto DNA 11 , 12 . (nature.com)
Precipitates2
- Spermidine's known actions include: Inhibits neuronal nitric oxide synthase (nNOS) Binds and precipitates DNA Polyamine plant growth regulator Good dietary sources of spermidine are aged cheese, mushrooms, soy products, legumes, corn, and whole grains. (wikipedia.org)
- Spermidine binds and precipitates DNA and may be used for purification of DNA binding proteins. (botanicure.com)
Complexes2
- Chromosome structure in both interphase and M-phase cells is strongly influenced by the action of the cohesin and condensin protein complexes. (nih.gov)
- Unlike the embryonic extract, the extracts of 84-h-old larvae produced only low-shifting binding complexes when incubated with a CPD-specific probe. (ncl.edu.tw)
Single stranded2
- Furthermore, RA33 was shown to be present in the 40S hnRNP complex and to behave indistinguishably from A2 in binding to single stranded DNA. (jci.org)
- A protein interacting with an A-T-rich region that is a positive control element within the SP6 κ promoter was purified and identified as CArG-box binding factor-A. The purified protein was shown to interact specifically with the coding strand of single-stranded DNA and, with lower affinity, with double-stranded DNA. (lu.se)
Double-stranded2
- While most DNA is double stranded, the catalytic DNA Lu's research group uses has a single strand region that can wrap around like a protein. (nanowerk.com)
- B virus contains double-stranded linear DNA and has a molecular weight of approximately 110 megadaltons (approximately 162 kilobase pairs). (medscape.com)
Assay3
- A competitive binding assay indicated that both CPDs and 6-4PPs were recognized by the same binding activity expressed in 12-h-old zebrafish. (ncl.edu.tw)
- A methylated DNA affinity precipitation method was implemented to assay binding of proteins to methylated DNA. (biomedcentral.com)
- IgG against the N protein of RVFV was detected through multiplex bead assay (MBA). (cdc.gov)
Amino Acids1
- This enzyme helps break down certain protein building blocks (amino acids), fat building blocks (fatty acids), and cholesterol. (medlineplus.gov)
Interactions5
- 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 two enrichment strategies allow probing of methyl-CpG protein interactions in early vertebrate oocytes and embryos. (biomedcentral.com)
- A number of methods to study DNA-protein interactions have been developed over the years. (biomedcentral.com)
- The work is of interest to colleagues in synthetic biology, protein engineering and plant-pathogen interactions. (elifesciences.org)
- Our facilities provide the opportunity to study protein structure, molecular probes and drug design, system biology and molecular interactions in cells and tissues. (lu.se)
Conformation1
- Shortly after SARS-CoV emerged at the turn of the 21st century, the spike (S) protein (particularly in its native conformation) was identified as the immunodominant antigen of the virus3. (who.int)
Expression6
- The second part is a pair of regulatable protein expression vectors that permit in vivo production of the target protein at levels appropriate for genetic experiments. (scipeeps.com)
- The expression of distorted DNA-binding factors was studied in developing zebrafish using UV-damaged DNA as the binding target. (ncl.edu.tw)
- A strong and high-shifting binding activity was detected in the extracts of zebrafish embryo (12 h after fertilization), and the expression of the activity dramatically decreased in 60 to 84-h-old zebrafish. (ncl.edu.tw)
- Protein Expression and Purification, molecular modelling, and molecular dynamics simulation. (umassmed.edu)
- Linear DNA can be rapidly and easily amplified by PCR to obtain high concentrations of the template, avoiding potential in vivo expression toxicity. (jove.com)
- When a microRNA is present in the cell, it binds to the target sites and downregulates GFP expression, while in cells that do not express the microRNA GFP, it is expressed. (lu.se)
Functionally1
- DNA methylation is considered a "soft" and potentially reversible change to the genome that can define or adapt to tumor biology and is functionally equivalent to genetic changes like mutation or deletion ( Kulis and Esteller, 2010 ). (frontiersin.org)
Fractions1
- Methylated DNA affinity capture by methyl-CpG binding proteins produces fractions highly enriched for methylated DNA, suitable for coupling to next generation sequencing technologies. (biomedcentral.com)
Mass spectrometry1
- With the help of various forms of mass spectrometry, synchrotron radiation, protein production & labelling, and bioinformatics, our facilities provide the opportunity to study protein structure and dynamics, molecular probes and drug design. (lu.se)
HPLC2
- Reverse phase HPLC of an apparently homogeneous Sso7c protein fraction from Mono S chromatography resulted in resolution of three further peaks. (ox.ac.uk)
- The remaining two proteins obtained after HPLC separation were identified as homologues of bacterial repressor-like proteins. (ox.ac.uk)
Proteomic analysis1
- Purification and Proteomic Analysis of Plant Plasma Membranes. (lu.se)
Specificity3
- Spermidine increases specificity and reproducibility of Taq-mediated PCR by neutralizing and stabilizing the negative charge on DNA phosphate backbone. (wikipedia.org)
- Specificity of binding was demonstrated by addition of a 10x excess of non-biotinylated oligo that was able to displace the transcription factor. (qiagen.com)
- The authors nicely demonstrate that it is indeed possible to engineer resistance proteins with broad recognition specificity for the rice blast fungus. (elifesciences.org)
Nuclear6
- Egg extracts, in which the cell cycle state can be manipulated, contain stockpiles of nuclear proteins (including condensin and cohesin) sufficient for the assembly of thousands of nuclei per microliter. (nih.gov)
- The Qproteome Nuclear Protein Kit is intended for molecular biology applications. (qiagen.com)
- The Qproteome Nuclear Protein Kit is designed for specific enrichment of nuclear proteins from cultured mammalian cells. (qiagen.com)
- A high-salt buffer allows dissociation of nuclear binding proteins (such as transcription factors) and their removal by diffusion from the nuclei. (qiagen.com)
- Purification and partial sequencing of the nuclear autoantigen RA33 shows that it is indistinguishable from the A2 protein of the heterogeneous nuclear ribonucleoprotein complex. (jci.org)
- The bound complex is internalized and translocates into the oocyte nucleus thanks to an SV40 nuclear localization signal, enhanced by an adjacent casein kinase phosphorylation site. (biologists.com)
Recombinant protein1
- Sample: Recombinant protein. (biomatik.com)
Molecules3
- Deep sequencing of RNA molecules cross-linked to immunoprecipitated protein particles (CLIP-seq) revealed. (shengsci.com)
- Spermidine is, at physiological pH, a polycationic reagent that aids in enzyme digestion by forcing apart DNA molecules. (wikipedia.org)
- 1983. Topological linkage of circular DNA molecules promoted by Ustilago rec 1 protein and topoisomerase. . (cornell.edu)
Receptors3
- A subset of plant intracellular NLR immune receptors detect effector proteins, secreted by phytopathogens to promote infection, through unconventional integrated domains which resemble the effector's host targets. (elifesciences.org)
- These receptors detect effector proteins which are delivered into host cells by invading pathogens and pests to promote virulence. (elifesciences.org)
- NLR receptors have a modular domain architecture typically consisting of an N-terminal coiled-coil (CC or CC R ) or Toll/Interleukin-1 receptor (TIR) domain, a central nucleotide-binding (NB-ARC) domain, and a C-terminal leucine-rich repeat (LRR) domain. (elifesciences.org)
Lipids2
- Both methods yield antibody in solution that is free of most other soluble proteins, lipids, etc. (bdbiosciences.com)
- Oxidant damage to cellular DNA, proteins (including the epigenome), and lipids can occur when reactive oxygen species escape cell antioxidant and repair mechanisms. (who.int)
Mutations2
Homeodomain1
- SATB1 is a homeodomain MAR binding protein. (bdbiosciences.com)
Antibody3
- The binding activity expressed in embryos was apparently unrelated to human DNA repair damage-recognition proteins XPA、RPA-70 and RPA-32, since those polypeptides recognized by an anti-human XPA、RPA-70 and RPA-32 antibody were detected only in 84-h-old zebrafish extracts. (ncl.edu.tw)
- NX1 extraction buffer (Blank) or 10 µg nucleic acid binding protein fraction was added, washed, and detected colorimetrically in an ELISA procedure using a transcription-factor specific antibody. (qiagen.com)
- Sodium azide may be removed by washing stained cells or plate-bound antibody or dialyzing soluble antibody in sodium azide-free buffer. (bdbiosciences.com)
19931
- 1993. Purification and properties of a cruciform DNA binding protein from Ustilago maydis. . (cornell.edu)
Enzymes4
- Utilizing computational methodologies, including molecular modeling and conventional molecular dynamics simulations to understand the relationship between the three-dimensional structures, dynamics and the biological functions of DNA-binding enzymes and proteins central to Type I Diabetes. (umassmed.edu)
- To prevent this, the DNA solution volume added to the reaction for these enzymes should be no more than 25% of total reaction volume. (neb.com)
- Time-Saver qualified enzymes can cut substrate DNA in 5-15 minutes and safely digest overnight. (neb.com)
- NEB began switching our BSA-containing reaction buffers in April 2021 to buffers containing Recombinant Albumin (rAlbumin) for restriction enzymes and some DNA modifying enzymes. (neb.com)
Genome3
- Programmed genome rearrangements in Oxytricha produce transcriptionally active extrachromosomal circular DNA. (shengsci.com)
- This versatile pathway is able to detect and remove a variety of bulky DNA lesions induced by UV light and environmental carcinogens and thereby maintains genome integrity. (uu.nl)
- Purification of Cyclospora cayetanensis oocysts obtained from human stool specimens for whole genome sequencing. (cdc.gov)
Spermidine2
- Spermidine can be used in electroporation while transferring the DNA into the cell under the electrical impulse. (wikipedia.org)
- Spermidine binds to and activates NMDA and has been shown to potentiate NMDA-induced currents in a concentration-dependent manner. (botanicure.com)
Transcription factor1
- A biotinylated DNA oligo containing a specific transcription-factor binding sequence was immobilized on a streptavidin-coated 96-well plate. (qiagen.com)
Membrane6
- The performance of commonly used AEX resins and membrane adsorbers, detailing dynamic binding capacity performance, efficiency, and a new disposable option for packed bed chromatography are compared. (biopharminternational.com)
- AEX chromatography resins and membrane adsorbers are frequently used for downstream purification in the biotechnology industry. (biopharminternational.com)
- This format enables volumetric throughput capability that is similar to the membrane format, and increases flexibility when designing a purification scheme. (biopharminternational.com)
- The scale-down model used to compare the performance of the different AEX products/formats is summarized in Table I. We evaluated five commonly used AEX products: three resins and two membrane adsorbers for dynamic binding capacity of DNA and protein using bovine serum albumin (BSA) to mimic common contaminants, such as host cell proteins, removed during a FT step. (biopharminternational.com)
- The ABCD4 protein is found in the membrane that surrounds cell structures called lysosomes. (medlineplus.gov)
- Affinity tags can reduce merohedral twinning of membrane protein crystals. (lu.se)
Kinase2
- We have previously shown that HMGA2-induced transcription requires phosphorylation of H2A.X at S139, which in turn is mediated by the protein kinase ataxia telangiectasia mutated (ATM) 10 . (nature.com)
- Moreover, Tmem150b negatively regulated bone morphogenetic protein (BMP) signaling, likely via physical interaction with activin receptor-like kinase 2 (ALK2). (bvsalud.org)
Lund University1
Insoluble1
Aquaporin1
- Aquaporin-9 Protein Is the Primary Route of Hepatocyte Glycerol Uptake for Glycerol Gluconeogenesis in Mice. (lu.se)
Functional4
- Mechanistically, it shares the molecular pathways engaged by other caloric restriction mimetics: It induces protein deacetylation and depends on functional autophagy. (botanicure.com)
- Leucine repeats and an adjacent DNA binding domain mediate the formation of functional cFos-cJun heterodimers. (wikidata.org)
- The AR-interactome encodes a broad list of functional coregulators that influence AR transcriptional activity at a number of different levels after binding androgenic ligands. (researchensemble.com)
- A shortage of functional ABCD4 protein prevents the release of vitamin B12 from lysosomes, so the vitamin is unavailable for the production of AdoCbl and MeCbl. (medlineplus.gov)
Interaction1
- Purification and interaction analyses of two human lysosomal vitamin B12 transporters: LMBD1 and ABCD4. (medlineplus.gov)
Extraction4
- After washing, an extraction buffer is added to the nuclei and nucleic acid binding proteins dissociate from DNA and RNA. (qiagen.com)
- There are three options for DNA analysis with FTA cards: direct amplification, standard amplification with rinsing ("punch-in" method) and extraction of DNA from the card. (qiagen.com)
- Fast and reliable extraction of protozoan parasite DNA from fecal specimens. (cdc.gov)
- Tris buffer solutions are widely used in cell and molecular biology for processes such as protein and nucleic acid extraction and purification. (sigmaaldrich.com)
Chromatography1
- AEX products are used for polish chromatography in product FT mode to bind product-related and process impurities. (biopharminternational.com)
Transcriptional activity1
- more than 350 proteins known to bind AR and potentially modulate AR transcriptional activity in response to androgenic ligands (27 -30). (researchensemble.com)
Detect1
Bacterial1
Phosphorylation1
- Here we show that high-mobility group AT-hook 2 protein (HMGA2) induces DNA nicks at the transcription start site, which are required by the histone chaperone FACT complex to incorporate nucleosomes containing the histone variant H2A.X. Further, phosphorylation of H2A.X at S139 (γ-H2AX) is required for repair-mediated DNA demethylation and transcription activation. (nature.com)
Activates1
- Direct binding of effectors to these integrated domains activates plant defenses. (elifesciences.org)
Enzyme3
- DNA purification procedures that use spin columns can result in high salt levels, which can inhibit enzyme activity. (neb.com)
- Author Manuscript and RNA repair protein AlkB-derived enzyme mixture was first used to remove methylations at the Watson-Crick face. (cdc.gov)
- For metal- powerful methods to obtain and compare reaction and activation loproteins, a third method to obtain local information about the energies for suggested enzyme mechanisms and they can also provide atomic details about the protein dynamics. (lu.se)
Phosphate backbone1
- The best characterized chemical modification of DNA is the methylation of cytosine to 5-methylcytosine (5mC) that occurs almost exclusively in the context of a cytosine base linked by the DNA phosphate-backbone to guanosine, termed a CpG site. (frontiersin.org)
Methylation changes3
- Carcinogenesis is accompanied by widespread DNA methylation changes within the cell. (frontiersin.org)
- These properties make cancer-associated DNA methylation changes very attractive for development of cancer biomarker tests with substantive clinical utility. (frontiersin.org)
- Cancer-associated DNA methylation changes can also be detected with accuracy in the cell-free DNA present in blood, stool, urine, and other biosamples. (frontiersin.org)