nrse re1 the dna binding element of rest nrsf

... For HPV-16, the flexibility of the loop may alter the adaptability of the DNA- binding helices, thus modulating the discrimination of specific versus nonspecific DNA sequences For both the E2s, we ... indicating the importance of the positive charges for the occurrence of nonspecific contacts with DNA [22] The BPV-1 protein shows low flexibility of the loop connecting the b2 and b3 strands (Fig 6B) The ... to the DNA interaction sites that compensates for the lower mobility of the barrel The relatively high Papillomavirus E2 DNA- binding domain simulations plasticity of helix a1 is in line with the...

Ngày tải lên: 16/03/2014, 10:20

... analyse the role of the ATPbinding domain as a modifier of transcription factors in vivo, with the prospect of developing drugs that either stabilize the ATP-bound conformation of MDM2 or inhibit the ... wild-type MDM2 at inhibiting the DNA- binding function of E2F1 These data are similar to the previously reported inhibition of p53 function by the MDM2–HSP90 complex in the absence of ATP [21] However, ... ng) was incubated in the presence of the indicated amounts of wild-type MDM2 protein in the absence of ATP (lanes 2–5) or in the presence of ATP (1 mM, lanes 7–10), and DNA- binding reactions were...

Ngày tải lên: 24/03/2014, 00:21

... Synthesis of O1 DNA Synthesis of O2 and O1O2 DNAs Synthesis of O2 DNA Synthesis of O3 DNA Synthesis of O3 DNA Synthesis of S aureus cspC DNA Synthesis of S aureus cspC DNA (Fig 2A) was synthesized ... groove of the DNA helix [1] Therefore, the data also suggest that the interaction between CI and the operator DNA may occur through the major groove of the operator DNA helix The absence of detectable ... shown to the right of the gel (B) Autoradiogram of the gel shift assay shows the binding of varying concentrations (0.2–2 lM) of CI to a fixed amount of O1 DNA mix ( 0.1 nM 32P-labeled O1 DNA plus...

Ngày tải lên: 07/03/2014, 00:20

... The 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 ... A B Identification of the 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 ... constant amounts of SenR and increasing amounts of unlabeled up-hbpS2 DII + DIII (Fig 7D) Taken together, these data confirm the specificity of the SenR -binding sites and corroborate the assumption...

Ngày tải lên: 07/03/2014, 10:20

... phosphorylation of these sites might affect the DNA binding and/or dimerization activities of dHAND We first analyzed the effect of phosphorylation on the transcriptional activity of dHAND using ... detect the effects of Akt phosphorylation on dimerization activity of dHAND, we next examine whether the DNA binding activity of dHAND could be affected by Akt phosphorylation The influence of phosphorylation ... We selected the Gal4-fusion system because we can estimate the dimerization activity with E47 and the transcriptional activity of the dHAND/E47 heterodimer independently of their DNA binding activity...

Ngày tải lên: 07/03/2014, 16:20

... further our knowledge with respect to the mechanisms of action of these proteins, it is crucial that we define the precise boundaries of the STI1-homologous domain and compare the structures of these ... solubilized the protein fragment in 10 mm CHAPS buffer The combination of these two A Dynamic structure of XPC -binding domain of hHR23B procedures markedly improved the quality of the 15NHSQC ... 566–608 and 613–661 of the hHR23B -binding domain of XPC) However, we not able to detect binding of either XPCB–hHR23B or the complete hHR23B protein in GST pull-down assays using these two constructs...

Ngày tải lên: 07/03/2014, 17:20

... [7] Thus, truncation of the C-terminal domain and the binding of heme may affect the DNAbinding properties of the bHLH-PAS-A fragment We further examined the binding of CO to the Fe(II) bHLH-PAS-A ... to heme binding to the PAS-A domain in NPAS2 and how the bound heme participates in the binding of NPAS-2 to the E-box DNA sequence In the present study, we investigated the role of the bHLH ... examine the nature of the heme environment of the bHLH-PAS-A domain of NPAS2, we analyzed the resonance Raman spectra of the Fe(III), Fe(II) and Fe(II)–CO complexes The spectra of the Fe(III) and...

Ngày tải lên: 30/03/2014, 11:20

... GM2 and the interaction of the GM2AP ⁄ GM2 complex with the enzyme To delineate in detail the separate effect of the introduced mutations on the lipid- and the enzyme -binding of this cofactor, ... that of the WT protein Only these variants of GM2AP were examined in all further studies To assess the potential of the variant GM2AP forms for the stimulation of HexA catalysed hydrolysis of GM2, ... [16,17] Several lines of evidence indicate that GM2AP interacts with the a subunit of HexA, but the presence of the b subunit enhances binding [5,16,18,19] The crystal structure of mature GM2AP expressed...

Ngày tải lên: 07/03/2014, 12:20

... arrangement of these elements is usually bababba, similar to the thioredoxin fold of other GSH -binding or cysteine -binding proteins The H-site is entirely helical, with a variable number of a-helices, ... as the substitution of the chlorine atom with the more electronegative fluorine in the CDNB molecule did not affect the kcat values Altogether, these results are consistent with the idea that the ... affinity of GSTU1 for this substrate The Km values of GSTU1 and GSTU2 for CDNB are in the range of those of plant GSTs, whose values vary from 0.12 to 4.43 mm [24,29,30] As expected on the basis of the...

Ngày tải lên: 15/03/2014, 09:20

... features of the consensus motif into the Zm-p60.1 scaffold, an analysis of structural and catalytic properties of the mutants, and simulations of the substrate–enzyme interactions of the wild-type ... analysis of plant b-glucosidases to obtain insights into the evolution of the molecular sites involved in the two modes of aglycone binding The amino acid sequence of Zm-p60.1 was compared with the ... assess the relative proportions of secondary structural elements in the wild-type and mutant enzymes (using dicroprot v 1.0, see Fig 4) and the thermal stability of the mutant enzymes The predictions...

Ngày tải lên: 16/03/2014, 04:20

... Deter¨ mination of the nuclear magnetic resonance structure of the DNA- binding domain of the P22 c2 repressor (1–76) in solution and comparison with the DNA- binding domain of the 434 repressor ... residues 137 to 171 Therefore, the C-terminal helix hairpin observed in DnaG-C is not a structural feature of DnaB(1–171) Interaction of DnaG-C with DnaB(1–171) Binding of DnaG-C to DnaB(1–171) was ... binding with DnaG-C or DnaG, illustrating the critical importance of the C-terminal domain of DnaB for this interaction Possibly, the linker between the N-terminal and C-terminal domains of DnaB...

Ngày tải lên: 16/03/2014, 12:20

... 2002 of the inhibitor in protease binding can differ with the target protease [28] The contributions of the N-terminal region and the first binding loop of family and cystatins, as well as of the ... Leu73–Asn77 segment in the second binding loop of cystatin A After each of these steps, the conformation of the second binding loop in the complex was refined by energy minimization of the Leu73–Asn77 ... considerably decrease the contribution of the second binding loop of cystatin A to the inhibition of target proteases However, the flexibility of the second binding loop of cystatin A demonstrated...

Ngày tải lên: 17/03/2014, 10:20

... comparison, we have measured the effect of S-decyl-glutathione on the ATPase activity of MalK [40] and of GlcV, the ATP -binding subunit of a glucose uptake system from the thermoacidophilic Sulfolobus ... have an allocrite -binding site located on the ATP -binding domain [31] Furthermore, the ATP -binding component of the Escherichia coli ABC transporter KspTM involved in the transport of polysialic ... ions but the hydrolysis of ATP was also observed in the presence of manganese, cobalt and calcium ions (Table 1) To further characterize the ATPase activity of both GST-NBDs, the effect of ATPase...

Ngày tải lên: 17/03/2014, 23:20

... consists of the GAL4 DNA binding domain fused to the N-terminal end of a fragment comprising a portion of hinge region, LBD, and the entire C-terminal domain (also called F domain) of EcR A 679-nucleotide ... fragment of USP Clone pGAD424-USP(172–508) encodes a fusion protein consisting of the activation domain of GAL4 and the C-terminal part of USP including a portion of the hinge region and the LBD ... helix 11 and 12 but not theEcRFdomain.TheN-terminalportionofthehingeregion is dispensible for ligand-induced heterodimerization The question of whether the same holds true for the C-terminal regioncouldnotbeassessed...

Ngày tải lên: 18/03/2014, 01:20

... modulating the catalytic properties of the enzyme [19] To extend the information about the role of the noncatalytic SBD regions and their effect on the C-terminal CD, we further explored the amino ... indicating that the addition of D123 increases the apparent affinity of the CD protein for the polysaccharide However, the CD+D123 protein only partially restored the Vmax value of the full-length ... of ADPGlc via ADPGlc PPase is the first committed step in starch biosynthesis, SS catalyzes the elongation of a-1,4-glucans by the transfer of the glucosyl moiety from the sugarnucleotide to the...

Ngày tải lên: 22/03/2014, 21:20

... envisaged as coordination of the metal ion by the nitrogens of the imidazole rings of the histidines and the amino group in the N-terminus Use of the signal intensity reduction of the 1H–13C HSQC crosspeaks ... that the aromatic ring of Tyr10 is not involved in binding of the metal Instead, the e and d resonances of the histidines show significant intensity losses, of > 80% The d-proton signals of His6 ... complexation with the buffer, we can only obtain an estimate of the order of magnitude of the dissociation constants On the other hand, from NMR we obtain an unambiguous description of the binding When...

Ngày tải lên: 23/03/2014, 10:20

... of the D278 mutant indicates the partial contribution of this side chain to the signals of the protonated acidic residues for the oxidized form in the absence of the inhibitor The shifts of the ... for the loss of signal intensity, e.g for the E81Q mutation, the dependence of the m(C = O) signal for up to 50% of its intensity on the orientation of the methoxy side chains in relation to the ... influences the heme bL spectral properties The crystal structure of the bc1 complex with stigmatellin bound at the Qo site [2] shows tight and specific binding of the inhibitor The position of the conjugated...

Ngày tải lên: 23/03/2014, 10:20

... ⁄ 03 ⁄ H016), the Grant Agency of the Ministry of Health of the Czech Republic (NR8562-4 ⁄ 2005), Ministry of Education of the CR (MSMT LC06030) and the Academy of Sciences of the Czech Republic ... features of A -DNA [4,5] The markedly enhanced cleavage by DNase I of the bond between two thymidines on the 3¢ side of the adduct in the top strand is a unique and interesting observation for the ... Discussion In general, binding to and cutting of DNA by DNase I is affected by the local structure of the DNA at and in the close proximity of the cleavage site, in particular the minor groove width...

Ngày tải lên: 23/03/2014, 10:21

... patients Standard ratios represent the peak area of each mgÆmL)1 standard compared with the peak area of the internal standard (B) Summary of the range of the total bile acid concentrations found ... 5E) The greatest similarity between these proteins was within the first 90 amino acids, which contain the two helix–turn–helix sequences of the EF-hand calcium -binding motifs The calcium -binding ... suggests that calcium binding might be central to the function of SEP53 and as such we analysed whether deletion of the calcium -binding domain of SEP53 alters its specific activity in the clonogenic...

Ngày tải lên: 23/03/2014, 10:21

... PKR mutants and the mutant name is shown at the bottom of the panels (C) dsRNA -binding activity of the mutants The dsRNA -binding activity of the point mutants was tested by their binding to poly(I)Æpoly(C)-agarose ... to the beads in the absence of activator; ds lanes, proteins bound to the beads in the presence of dsRNA and hep lanes, proteins bound to the beads in the presence of heparin The names of the ... heparin -binding activity, we compared the heparin binding of three deletion mutants of PKR with that of the full length PKR protein using the heparin– agarose binding assay The heparin-binding...

Ngày tải lên: 23/03/2014, 13:20