κb activity in vivo using data from dna binding platforms
Báo cáo y học: " NF- B subunits RELB C-Rel RELA p50 p52 bound DNA b EMS" docx
... Nonbinding NA CTGGGGATTTA 0.29 NA RELAp50 RELAp52 Binding affinity (Kd) Binding affinity (z-score) Binding affinity (Kd) Binding affinity (z-score) Binding affinity (Kd) EMSASeq UV-laser footprint ... footprinting Finally, we examine the relationships between NF-B in vitro binding affinities (defined as binding potential) and their significance in vivo by overlaying sequences and measured binding ... reference NF-B binding- model, were used as targets for a UV footprinting experiment Finally, differences for in vitro binding potential as determined using binding affinities from EMSA-Seq and...
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Báo cáo khoa học: Role of CCP2 of the C4b-binding protein b-chain in protein S binding evaluated by mutagenesis and monoclonal antibodies docx
... b-chain in immobilized C4BP In uence of protein S binding of monoclonal antibodies To investigate whether protein S and MoAb 15/ MoAb 44 had overlapping binding sites on the b chain, the following ... sterical hindrance between protein S and MoAb 44 Discussion The binding site for protein S on C4BP is predominantly contained in CCP1 of the b-chain [9] A key binding surface for protein S involves ... protein S C4b binding protein interactions by homology modeling and inhibitory antibodies Biochemistry 33, 11073–11078 ´ Fernandez, J.A & Griffin, J.H (1994) A protein S binding site on C4b-binding...
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Báo cáo khoa học: Helicobacter pylori single-stranded DNA binding protein – functional characterization and modulation of H. pylori DnaB helicase activity pptx
... Murphy JB & Chase JW (1987) Investigation of the role of individual tryptophan residues in the binding of Escherichia coli single-stranded DNA binding protein to single-stranded polynucleotides ... N-terminal DNA- binding domain ( 67%) compared to the C-terminal domain ( 34%), which is assumed to be the region responsible for protein–protein interaction Sequence comparison reveals many interesting ... from E coli BL21 strain and the purified protein was used for DNA binding activity mCherry-HpSSB shows DNA- binding Table Complementation analysis of HpSSB E coli RDP 317 Dssb strain was transformed...
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Báo cáo y học: " A balanced transcription between telomerase and the telomeric DNA-binding proteins TRF1, TRF2 and Pot1 in resting, activated, HTLV-1-transformed and Tax-expressing human T lymphocytes" pot
... several shelterin subunits, including TRF1, TIN2, TPP1, Pot1 and Rap1 For instance, Pot1, a single-stranded telomeric DNA- binding protein, behaves as a terminal transducer of the cis-inhibitory effect ... telomeric DNA- binding proteins TRF1, TRF2 and POT1 in normal, activated as well as in HTLV-1 infected and in Tax-expressing T lymphocytes They therefore plead for a regulatory mechanism controlling ... TTAGGG-repeat -binding protein TRF1 [6] The shelterin subunit TRF2 [7,8] is also involved in a negative regulation of telomere lengthening but by cis-activating rapid deletion events within the telomeric...
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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
... from the cyclic nucleotide -binding domain to the DNA- binding domain of the protein We have used single tryptophancontaining mutants of CRP The mutations were localized in the N-terminal domain ... in the movement of the C-terminal domain of CRP by % A towards the N-terminal domain, which in consequence leads to rearrangement of DNA- binding domains and cAMPbinding domains of the protein ... cAMP binding to the syn-cAMP -binding sites at concentration of the ligand of mM causes a % 6% increase in its uorescence intensity, which indicates that this residue is sensitive to cAMP binding...
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Báo cáo khoa học: Characterization of HbpR binding by site-directed mutagenesis of its DNA-binding site and by deletion of the effector domain pot
... and for DNA binding, by cloning an hbpR gene devoid of the A-domain, purifying this protein, and analyzing its DNA- binding characteristics and its activation capacity of the hbpC promoter in Escherichia ... affinity binding by purified HbpR In several cases, DNaseI footprints were conducted to confirm the binding site contacts Additionally, we determined whether the A-domain of HbpR is important in forming ... the DNA The objectives of this work were to identify critical motifs in the binding site for HbpR and to examine the necessity of the sensing A-domain of HbpR for DNA binding The role of individual...
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![Tài liệu Báo cáo khoa học: The stereochemistry of benzo[a]pyrene-2¢-deoxyguanosine adducts affects DNA methylation by SssI and HhaI DNA methyltransferases pptx](https://media.store123doc.com/images/document/14/br/gc/small_Y97X8XlBli.jpg)
Tài liệu Báo cáo khoa học: The stereochemistry of benzo[a]pyrene-2¢-deoxyguanosine adducts affects DNA methylation by SssI and HhaI DNA methyltransferases pptx
... affect M.SssI binding to DNA, but reduced M.HhaI binding by 1–2 orders of magnitude (Fig 6) Therefore, the bulky B[a]P residue positioned in the DNA minor groove severely inhibits DNA binding to M.HhaI ... domains, the large domain containing the S-adenosyl-l-methionine (AdoMet) binding site and the catalytic center, and the small domain containing the target recognition domain (Fig 5B) The DNA ... reduction in the binding affinity was observed in the case of binding of the M.HhaI with the X+CG ⁄ CGM duplex containing the (+)-cis-B[a]PN2-dG adduct on the 5¢-side of the target dC residue The binding...
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Tài liệu Báo cáo khoa học: DNA modification with cisplatin affects sequence-specific DNA binding of p53 and p73 proteins in a target site-dependent manner pptx
... protein was decreased due to formation of cisplatin adducts within the p53 DNA- binding site (p53DBS), resulting in increased p53 binding to the labeled probe The pPGM4 fragment (c) contains cisplatinresistant ... target site, the intensity of the R53 band resulting from p53 binding to unmodified DNA was taken as 1.0, and the intensities of bands corresponding to p53 binding to the same but cisplatin-treated ... and PGM4 targets) Effects of DNA cis-platination on sequencespecific DNA binding of p73 proteins We tested the in uence of DNA modification with cisplatin on the binding of two p73 isoforms, p73d...
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Tài liệu Báo cáo khoa học: Roles of the human Rad51 L1 and L2 loops in DNA binding doc
... residue in the L1 loop is involved in the functional DNA binding during strand exchange Tryptophan-scanning mutagenesis of the HsRad51-L1 loop To gain further information about DNA binding by ... alanine If the aromatic side chain is involved in the interaction with DNA, then its replacement with alanine, a short side chain amino acid residue, should affect the DNA binding of the protein ... (Rad51-Y232W) caused significant defects in dsDNA binding, although it possessed the ssDNA -binding ability (Fig 3A,B, lanes 9–12) As expected from the DNA binding defect, neither Rad51Y232A nor Rad51-Y232W...
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Báo cáo khoa học: Physicochemical properties and distinct DNA binding capacity of the repressor of temperate Staphylococcus aureus phage /11 doc
... O2 The data therefore indicate that binding of CI to O3 is nonspecific in nature Interestingly, /11 Cro that neither binds to O1 or O2 demonstrates specific binding to O3 DNA [26] To determine whether ... helixturn-helix DNA binding motif similar to that of lambdoid phages, indicating that this half of the /11 repressor most likely participates in the binding of operator DNA An N-terminal histidine-tagged ... equilibrium binding of CI to O1 and O2 DNA respectively (J) Cooperative binding: the operator DNA contents in the shifted complexes and and in the unbound labeled O1O2 DNA were determined by scanning...
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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
... ending at the 5¢-end of binding site III, and containing a deleted binding site II) To determine whether SenR had already been in a phosphorylated form within E coli, the obtained protein was incubated ... use of DNA fragments lacking either binding site II, binding site III or both showed that each of them is necessary for specific targeting by SenR Further single replacements within each binding ... 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 DNA- fragments EMSAs...
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Báo cáo khoa học: Akt-dependent phosphorylation negatively regulates the transcriptional activity of dHAND by inhibiting the DNA binding activity pdf
... their DNA binding activity These results indicated that the phosphorylation of Thr102, Thr112, and Ser114 inhibited DNA binding activity of dHAND In this study, we showed that Akt could bind to ... whether the DNA binding activity of dHAND could be affected by Akt phosphorylation The in uence of phosphorylation by Akt on the DNA binding activity was examined by gel shift analysis We included ... contain consensus phosphorylation motifs for cAMPdependent protein kinase, protein kinase C and casein kinase II [36–42] The activation of cAMP-dependent protein kinase or protein kinase C can inhibit...
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Báo cáo khoa học: Transcription termination at the mouse mitochondrial H-strand promoter distal site requires an A/T rich sequence motif and sequence specific DNA binding proteins pptx
... for protein binding to D-TERM DNA The binding specificity of D-TERM DNA and also the possible protein DNA contact sites were further investigated using DNAse1 footprinting and methylation interference ... Fig Protein binding specificity and protein contact sites of the D-Term DNA (A) DNAse footprinting using mt protein extract Binding reactions contained 3¢ end-labelled H-strand D-TERM DNA probe ... DNA binding affinities we postulate that the 70-kDa protein is the major DNA binding component and the 45-kDa protein may associate with the DNA bound protein complex through protein–protein interaction...
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Báo cáo khoa học: Pherokine-2 and -3 Two Drosophila molecules related to pheromone/odor-binding proteins induced by viral and bacterial infections ppt
... structural family as the retinol -binding protein and the cholesterol -binding protein apoD [42], or of RYA3, which exhibits significant sequence homology to the LPS -binding protein [43] This latter example ... observations were made in mammals, where some odor -binding proteins, which are specifically expressed in olfactory epithelia, are structurally related to molecules involved in the binding and transport ... overexpressing phk-2 (data not shown) of the legs in larvae [40] Thus pherokines may have a general role in tissue remodeling in response to injury or in a developmental context In keeping with...
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Báo cáo Y học: High affinity binding between laminin and laminin binding protein of Leishmania is stimulated by zinc and may involve laminin zinc-finger like sequences doc
... essential for binding Changes in pH of the binding buffer also had marked effect on binding constant with a change of as little as 0.5 pH units from pH 7.5 being enough to lower specific binding activity ... activity Ó FEBS 2002 Zinc-finger sequence in laminin binding (Eur J Biochem 269) 1625 Fig Laminin binding activity for LBP (A) after heat denaturation and (B) at different pH (A) Binding experiments ... heating laminin in 20 mM Tris/HCl (pH 7.4), 150 mM NaCl and LBP in 20 mM Na2CO3, NaHCO3 (pH 9.6), M urea at 100 °C for Binding of untreated laminin to BSA is also included (B) LamininLBP binding...
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Báo cáo khoa học: pyr RNA binding to the Bacillus caldolyticus PyrR attenuation protein – characterization and regulation by uridine and guanosine nucleotides potx
... 0.5 mm UMP, which stimulated binding for all three binding loops, RNA binding to PyrR PyrR binding to BcBL1 resembled the binding observed for the other two binding loops The apparent dissociation ... favored by binding of either uridine nucleotides or binding of RNA itself in the case of BcBL1 The low affinity state is favored by the binding of guanosine nucleotides Thus, RNA binding involves ... excluded The binding of BcBL2 was described by a single tight binding curve although, in the presence of 0.5 mm GMP, the binding curve was broad and fitted less well to a simple binding equation...
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Báo cáo khoa học: In vitro embryonic developmental phosphorylation of the cellular nucleic acid binding protein by cAMP-dependent protein kinase, and its relevance for biochemical activities pdf
... element binding protein: cellular nucleic acid binding protein Virus Res 58, 73–82 Flink IL & Morkin E (1995) Alternatively processed isoforms of cellular nucleic acid -binding protein interact ... nucleic acid binding activity (A) EMSAs using a labelled single-stranded DNA probes containing the complement- In vitro developmental CNBP phosphorylation ary sequence of partial CT element from human ... translational inhibitor of ribosomal proteins mRNAs (rpmRNAs) through binding to the 5¢ UTR containing a 5¢ terminal oligopyrimidine tract (5¢ TOP) motif [14] CNBP cDNAs have been cloned from mammals...
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Báo cáo khoa học: DNA mediated disassembly of hRad51 and hRad52 proteins and recruitment of hRad51 to ssDNA by hRad52 pot
... hRad52 protein by itself showed only marginal binding (lanes 10 and 11) In the set containing hRad51 protein, addition of hRad52 protein converted free DNA as well as ‘small protein DNA complexes’ ... protein in its DNA- unbound form, exits in higher oligomeric forms, poses a mechanistic challenge as to how such structures transform into right-handed helical filaments during ⁄ following DNA binding ... thereby corroborating the effect of ssDNA induced disaggregation of hRad51 DNA/ ATP induced changes in hRad51 We tested whether DNA induced disaggregation of protein leads to changes in the pattern...
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![Báo cáo khoa học: Recognition of DNA modified by trans-[PtCl2NH3(4hydroxymethylpyridine)] by tumor suppressor protein p53 and character of DNA adducts of this cytotoxic complex potx](https://media.store123doc.com/images/document/14/rc/cf/small_cfu1394954409.jpg)
Báo cáo khoa học: Recognition of DNA modified by trans-[PtCl2NH3(4hydroxymethylpyridine)] by tumor suppressor protein p53 and character of DNA adducts of this cytotoxic complex potx
... similarly to cisplatin DNA binding In order to shed light on the specific character of DNA adducts of trans-PtHMP, we further examined the DNA binding properties of this new transplatin analogue and ... DNA increased with time In this binding reaction the time at which the binding reached 50% (t50%) was 120 This result indicates that the rate of binding of transPtHMP to natural double-helical DNA ... electrophoresis in denaturing 12% PAA ⁄ m urea gel The bases involved in the interstrand CLs were determined by Maxam-Gilbert footprinting [21] Unwinding of negatively supercoiled plasmid DNA Unwinding of...
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