dna binding reactions for nuclear extracts isolated from cellular pellets
Tài liệu Báo cáo khoa học: Steady-state and time-resolved fluorescence studies of conformational changes induced by cyclic AMP and DNA binding to cyclic AMP receptor protein from Escherichia coli ppt
... switch from the low-afnity and nonspecic DNA- binding state to the state characterized by high afnity and sequence specicity ể FEBS 2003 Conformational changes induced by cAMP and DNA binding ... evidence for conformational changes induced by cAMP binding to the anti-cAMP -binding sites of CRP, which in turn trigger specic pathways of signal transmission from the cyclic nucleotide -binding ... high-afnity sites for cAMP and at least one low-afnity cAMP -binding site at high concentration of the ligand [8] The idea of the four cAMP -binding sites in CRP, for its anti conformation (at low...
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Tài liệu Báo cáo khoa học: TransLISA, a novel quantitative, nonradioactive assay for transcription factor DNA-binding analyses pdf
... affinities for transcription factor DNA binding The results of measurements of HSF1 DNA- binding activity from HeLa cells and MEFs are in line with results reported in several other papers The DNA binding ... sequence nGAAn through the DNA- binding domain Stable binding requires simultaneous binding of all DNA- binding domains in a trimer to three adjacent 7372 nGAAn repeats Therefore, a functional HSE ... DNA pull-down assay to measure nuclear receptor DNA binding in solution BioTechniques 45, 445–448 Galas D & Schmitz A (1978) DNAse footprinting: a simple method for the detection of protein–DNA...
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Tài liệu Báo cáo khoa học: A novel nuclear DNA helicase with high specific activity from Pisum sativum catalytically translocates in the 3¢fi5¢ direction docx
... different from other plant nuclear helicases The PDH120 was fractionated from pea nuclear extract on the basis of its behaviour on DE-52 cellulose, Bio-Rex70, phosphocellulose, dsDNA and ssDNA chromatography ... antibodies Substrate for CK2 protein kinase Substrate for cdc2 protein kinase Localization a Pea DNA helicase 45 kDa in size [13] b Pea DNA helicase 65 kDa in size [14] c Isolated from highly purified ... the gel with Bio-Rad kit Ó FEBS 2003 A novel nuclear DNA helicase from Pisum sativum (Eur J Biochem 270) 1737 Table Purification of pea nuclear DNA helicase 120 Twelve kilograms of pea leaves...
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Báo cáo khoa học: DNA-binding characteristics of the regulator SenR in response to phosphorylation by the sensor histidine autokinase SenS from Streptomyces reticuli doc
... mutated SenR -binding sites Fragment A B C D E F G H I Primer name IHinfor IEcorev IEcofor IPstrev IIHinfor IIEcorev IIEcofor IIPstrev IIHinfo IIIEcorev IIIEcofor IIPstrev IIHinfor REcorev REcofor IIPstrev ... helix–turn–helix DNA- binding domains of SenR and ChrA share 61% amino acid identity (data not shown) The designed SenRD60 and SenRD65A proteins showed reduced DNA- binding affinity for up-furS as well as for ... SenR -binding sites To identify the exact DNA- binding site(s) within up-furS1 and up-hbpS1, DNaseI footprinting experiTable Relative binding affinity of wild-type and mutated SenR proteins for 32P-labeled...
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Báo cáo khóa học: FRET evidence for a conformational change in TFIIB upon TBP-DNA binding pptx
... of conformational change of TFIIB upon binding with TBP– AdML A similar degree of TBP-promoter dependent change in emission ratio was also observed for CYIIB mutants; from 1.19 to 1.03 for E51R ... seen for AdML, GAL4–VP16 increased the kobs for all three constructs on AdE4 by a factor of 20 for both wild-type CYIIB and E51R (2.32 vs 0.12 min)1 for wild-type and 2.01 vs 0.11 min)1 for E51R) ... intensity ratio, observed for both AdML and AdE4, strongly suggests that TFIIB undergoes a change from a somewhat ÔclosedÕ conformational state in the apo form to a rather ÔopenÕ conformational state...
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Báo cáo khoa học: Molecular dynamics of the DNA-binding domain of the papillomavirus E2 transcriptional regulator uncover differential properties for DNA target accommodation pdf
... range of movements for the structured helices a1 that are necessary for nonspecific DNA target recognition From these data, it is possible to propose a significant role in DNA binding for the loop connecting ... bovine papillomavirus-1 E2 DNA- binding domain bound to its DNA target Nature 359, 505–512 11 Hegde RS & Androphy EJ (1998) Crystal structure of the E2 DNA- binding domain from human papillomavirus ... Papillomavirus E2 DNA- binding domain simulations M Falconi et al chemistry has failed to emerge Instead, it appears that the specificity of protein DNA reactions derives from a balance of several...
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Báo cáo khoa học: Characterization of a membrane-bound aminopeptidase purified from Acyrthosiphon pisum midgut cells A major binding site for toxic mannose lectins pptx
... 5.30 The full-length cDNA contains a short 5¢-UTR from to 132 bp and 3¢-UTR from 3055 to 3234 bp The protein encoded by this cDNA contains the three peptide sequences obtained from the purified enzyme, ... the cloned APN in almost 60 000 ESTs From these 29 ESTs, 22 belong to libraries from the digestive tract, and seven from libraries from whole insect (none from other tissue libraries), meaning ... digestion was performed for protein identification: spots were excised from preparative gels using pipette tips The spots were washed with 100 lL 25 mm NH4HCO3 for 30 min, twice destained for 30 with...
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Báo cáo khoa học: Common mode of DNA binding to cold shock domains Crystal structure of hexathymidine bound to the domain-swapped form of a major cold shock protein from Bacillus caldolyticus pot
... amyloidogenesis [29] For this enzyme, swapped dimers may be formed in solution, which can be isolated from closed monomers using chromatographic techniques [30,31] A swapped dimer was formed from two different ... nucleotide -binding site of the CSP thus DNA single-strand binding to the cold shock domain appears to be a conserved preformed platform, which does not undergo major reorientations upon ligand binding ... binding, and the backbone torsion angles of the DNA ligands are compatible with data obtained from tRNA crystal structures The extended irregular conformation of dT6 oligonucleotides in the binding...
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Báo cáo khoa học: Thermodynamic analysis of the unfolding and stability of the dimeric DNA-binding protein HU from the hyperthermophilic eubacterium Thermotoga maritima and its E34D mutant pdf
... (1990) The thermostability of DNA- binding protein HU from Bacilli Protein Eng 4, 11–22 16 Padas, P.M., Wilson, K.S & Vorgias, C.E (1992) The DNAbinding protein HU from mesophilic and thermophilic ... temperature of the samples within the cells was controlled by thermostat for before the spectra were measured For each spectrum five scans from 250 to 200 nm were made at a scan rate of 50 nm per minute ... T., Yamasaki, N & Kimura, M (1998) Investigation of the structural basis for thermostability of DNA binding protein HU from Bacillus stearothermophilus J Biol Chem 273, 19982–19987 25 Gill, S.C...
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Báo cáo khoa học: A DNA-binding surface of SPO11-1, an Arabidopsis SPO11 orthologue required for normal meiosis docx
... of the DNA still remained in the bound forms, and the amount of the second signal for the DNA binding was comparable to that of the fully bound form (Fig 3D) The second signal for the DNA binding ... of DNA in the bands This made it difficult to quantify the DNA- binding ability of mutant SPO11-1 When we tested the 180 bp dsDNA as a substrate for DNA binding, we found that the free 180 bp dsDNA ... that the soluble form of SPO11-1 is active in DNA binding DNA binding was indicated by a broadened band that gradually decreased in mobility; thus, we had to assess the DNA binding by monitoring...
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Báo cáo khoa học: Spectroscopic and DNA-binding characterization of the isolated heme-bound basic helix–loop–helix-PAS-A domain of neuronal PAS protein 2 (NPAS2), a transcription activator protein associated with circadian rhythms docx
... NO binding to the heme affects the DNA- binding properties of NPAS2 The rate constant for heme association (kon) with the isolated bHLH-PAS-A domain of NPAS2 was of the same order as those for ... other hemebinding proteins The Kd value of heme was estimated to be 1.6 · 10)10 m for the bHLH-PAS-A domain Analysis of DNA binding by the QCM method The QCM is a very sensitive device for the ... assists with the stable binding of heme to the PAS-A domain in the isolated bHLH-PAS-A protein We also determined the rate constant for the dissociation of heme (koff) from the isolated holo-bHLH-PASA...
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Báo cáo khoa học: Investigations of the supercoil-selective DNA binding of wild type p53 suggest a novel mechanism for controlling p53 function doc
... is crucial for strong SCS binding The protein deletion studies are useful for characterization of the isolated p53 DNA binding sites but cannot directly confirm their roles in SCS DNA binding of ... preference for scDNA [expressed as ratios of the intensities of bands of p53–scDNA/p53–linDNA complexes on the blot (B)] For other details, see Fig Competition between supercoiled DNA and p53CON for ... topological forms of DNA either containing or lacking the p53CON We demonstrate that the p53 CTDBS is critical for p53 SCS binding while the p53 CD is responsible for the supercoil nonselective DNA binding...
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Báo cáo khoa học: DNA-binding and transcription characteristics of three cloned sigma factors from mustard (Sinapis alba L.) suggest overlapping and distinct roles in plastid gene expression doc
... from S alba The full-length cDNAs for SASIG1 [14] (accession number Y15899), SASIG2 (this work; accession number AJ276656) and SASIG3 (accession number AJ276657) were cloned from a mustard cDNA ... autoinhibition domain Sigma–core interaction induces a conformational change that unmasks the DNA binding domains [43,44] The lack of DNA binding by SASIG3-374 is consistent with the apparent absence ... L.) chloroplast DNA Curr Genet 37, 45–52 18 Eisermann, A., Tiller, K & Link, G (1990) In vitro transcription and DNA binding characteristics of chloroplast and etioplast extracts from mustard (Sinapis...
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Báo cáo khoa học: Structure–activity relation for synthetic phenoxazone drugs Evidence for a direct correlation between DNA binding and pro-apoptotic activity pdf
... formation for ActIII–ActV with DNA Assuming that the nature of intercalation with DNA is similar for all the drugs investigated, then the additional enthalpy of complexation found for ActII DNA ... (calÆmol)1ÆK)1) – DGbind (kcalÆmol)1) ActII DNA ActIII DNA ActIV DNA ActV DNA Fig Heat absorption curves q (JÆs-1) as a function of temperature (°C) for solutions of pure DNA and its complexes with ActII–ActV ... than those for pure DNA (Table 2), which is probably due to the more ordered structure of the hydration environment of drug– DNA complexes compared with pure DNA The effect for ActII DNA complexation...
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Báo cáo khoa học: Structural basis for poor uracil excision from hairpin DNA An NMR study pptx
... (1997) DNA glycosylases in the base excision repair of DNA Biochem J 325, 1–16 Kumar, N.V & Varshney, U (1997) Contrasting effects of single stranded DNA binding protein on the activity of uracil DNA ... explanation for its poor excision by the enzyme However, this still did not explain why the catalytic rate (Vmax) for U excision in the U2-hairpin is poor For productive enzyme–substrate complex formation, ... 0.20–0.30 nm, respectively For these constraints a force constant of ˚ 20 kcalÆmol)1ÆA)2 was used The information about the range of pseudo-rotational phase angle (P) obtained from the knowledge of...
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Application of Bacillus spp. Isolated from the Intestine of Black Tiger Shrimp (Penaeus monodon Fabricius) from Natural Habitat for Control Pathogenic Bacteria in Aquaculture ppt
... AQVH was isolated from diseased P monodon, A hydrophila AQAH was isolated from diseased hybrid catfish and S agalactiae AQST was isolated from diseased Oreochromis niloticus obtained from Aquatic ... harveyi was isolated from the colonization area, especially from the cross streaking point as well as from the control All samples were cultured on TCBS agar and incubated at 30°C for 24 hours ... from animals such Kasetsart J (Nat Sci.) 41(5) 130 therefore are naturally ingested by animals such as shrimps that feed in or on the sediments (Moriarty, 1998) So, we isolated Bacillus spp from...
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thesis submitted for the doctoral degree of science study of nuclear reactions for astrophysics
... constructed from nuclei, it is possible to study stars, supernovae and cosmological phenomena by using nuclear reactions in laboratories on the Earth Therefore, the study of nuclear reactions is ... INSTITUTE Nguyen Ngoc Duy STUDY OF NUCLEAR REACTIONS FOR ASTROPHYSICS Subject: Atomic and Nuclear Physics Code number: 62 44 05 01 Thesis Submitted for the Doctoral Degree of Science Thesis ... not only for physics but also for astrophysics, so-called nuclear astrophysics According to the cosmic observation and nuclear mechanisms, the stellar evolution models including a lot of nuclear...
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Báo cáo vật lý: "Immobilization of Dithizone onto Chitin Isolated from Prawn Seawater Shells (P. merguensis) and its Preliminary Study for the Adsorption of Cd(II) Ion" pdf
... Synthetic chitin Isolated chitin Wavenumber –1) ) Wavenumber (cm Figure 2: IR spectra of (a) reference and (b) isolated chitin Table 1: Ash and total nitrogen contents of isolated chitin from prawn ... as that used for adsorption equilibrium experiments is provided for each pH used in the experiment Therefore the value of the adsorbed Cd(II) ions presented in Figure is purely from the adsorption ... grade, were all purchased from Merck, Germany Natural chitin was obtained by isolating it from prawn seawater shells Organic solvents were of reagent grade and used as received For all solutions, double...
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Báo cáo y học: " Genome-wide analysis of host-chromosome binding sites for Epstein-Barr Virus Nuclear Antigen 1 (EBNA1)" pot
... >5) binding sites for EBNA1 in the cellular chromosome of a human Burkitt lymphoma cell line Several (~25) of the high and low occupancy binding sites identified by ChIP-Seq were validated for binding ... indirect DNAbinding modes of EBNA1 Identification of high affinity cellular binding sites A remarkable finding from this study was the identification of a cluster of high-affinity EBNA1 binding ... EMSA Purified EBNA1 DNA binding domain (DBD) (aa 459607) was expressed and purified from E coli as a hexahistidine fusion protein in Escherichia coli Protein -DNA binding reactions contained 10%...
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Báo cáo y học: "Genome-wide identification of novel expression signatures reveal distinct patterns and prevalence of binding motifs for p53, nuclear factor-κB and other signal transcription factors in head and neck squamous cell carcinoma" docx
... were 63% for NF-κB, 60% for AP-1, 100% for STAT3, and 76% for EGR1 Similarly, in cluster B, the prevalence of binding sites falling in orthologous promoters were 65% for NF-κB, 67% for p53 and ... frequencies of their binding sites with those from vertebrate promoters from the Genomatix promoter database refereed research Genes in cluster C exhibited annotations for DNA replication, ubiquitin ... status by cDNA microarray expression profiling cDNA microarray analysis was performed using a panel of ten HNSCC cell line series from the University of Michigan (UMSCC), derived from eight patients...
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