当前位置： SCI文献检索 > BIOCHEMISTRY期刊下所有文献 > Stable DNA-protein cross-links are products of DNA charge transport in a nucleosome core particle.

Stable DNA-protein cross-links are products of DNA charge transport in a nucleosome core particle.

Abstract：

:DNA-protein cross-links (DPCs) in nucleosome core particles (NCPs), the fundamental building block of chromatin, arise during times of cellular oxidative stress. These lesions are expected to be detrimental to the cell due to interference with processes like chromatin remodeling, transcription, DNA replication, and epigenetic marking. However, much is still unknown about the mechanisms leading to the formation of DPCs in NCPs, and the exact sites of these lesions in chromatin have not been delineated. During DNA charge transport (CT), an oxidant leads to the formation of a guanine radical cation (G*+) which then becomes mobile and migrates away from the initial site of damage. Since previous studies have established that reactions between a G*+ and some amino acids lead to DPC formation in both DNA-peptide and DNA-protein complexes, we hypothesized that DNA CT could lead to DPC formation within NCPs. To test this hypothesis, we studied DNA CT reactions in NCPs reconstituted with DNA containing (i) the 601 NCP positioning sequence and (ii) 14 bp of a linker DNA with a covalently attached anthraquinone (AQ) photooxidant. Collectively, the results from Western blotting, EMSAs, and DNA footprinting reactions lead to the conclusion that AQ-initiated DNA CT is responsible for DNA-H3 cross-linking in one specific region of these NCPs. Furthermore, these DPCs are stable for days at 37 degrees C, indicating that DNA CT in chromatin can lead to long-lived DNA lesions which the cell must somehow find and excise.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Bjorklund CC,Davis WB

doi

10.1021/bi700475b

subject

Has Abstract

pub_date

2007-09-25 00:00:00

pages

10745-55

issue

38

eissn

0006-2960

issn

1520-4995

journal_volume

46

pub_type

杂志文章

相关文献

BIOCHEMISTRY文献大全
  • Magnetic circular dichroism studies on the mononuclear ferrous active site of phthalate dioxygenase from Pseudomonas cepacia show a change of ligation state on substrate binding.

    abstract：:Phthalate dioxygenase from Pseudomonas cepacia contains a mononuclear ferrous center that is strictly required for catalytic oxygen activation. The spectroscopic characterization of this iron site and its ligand interactions has been complicated in the past by interference from a Rieske-type binuclear (2Fe-2S) cluster...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00069a017

    authors： Gassner GT,Ballou DP,Landrum GA,Whittaker JW

    更新日期：1993-05-11 00:00:00

  • A new N-terminal recognition domain in caveolin-1 interacts with sterol carrier protein-2 (SCP-2).

    abstract：:Although plasma membrane domains, such as caveolae, provide an organizing principle for signaling pathways and cholesterol homeostasis in the cell, relatively little is known regarding specific mechanisms, whereby intracellular lipid-binding proteins are targeted to caveolae. Therefore, the interaction between caveoli...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi7002636

    authors： Parr RD,Martin GG,Hostetler HA,Schroeder ME,Mir KD,Kier AB,Ball JM,Schroeder F

    更新日期：2007-07-17 00:00:00

  • Observation of multiple myosin subfragment 1-ADP-fluoroberyllate complexes by 19F NMR spectroscopy.

    abstract：:Fluoroaluminate and fluoroberyllate are potent inhibitors of the ATPase activity of myosin. Inhibition requires the presence of ADP, and much evidence has accumulated to suggest that the tetrahedral fluoroaluminate and fluoroberyllate ions act as phosphate analogues, binding with high affinity at the active site in th...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00090a022

    authors： Henry GD,Maruta S,Ikebe M,Sykes BD

    更新日期：1993-10-05 00:00:00

  • Analyzing topography of membrane-inserted diphtheria toxin T domain using BODIPY-streptavidin: at low pH, helices 8 and 9 form a transmembrane hairpin but helices 5-7 form stable nonclassical inserted segments on the cis side of the bilayer.

    abstract：:Low pH-induced membrane insertion by diphtheria toxin T domain is crucial for A chain translocation into the cytoplasm. To define the membrane topography of the T domain, the exposure of biotinylated Cys residues to the cis and trans bilayer surfaces was examined using model membrane vesicles containing a deeply inser...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi049354j

    authors： Rosconi MP,Zhao G,London E

    更新日期：2004-07-20 00:00:00

  • The SH2 domains of inositol polyphosphate 5-phosphatases SHIP1 and SHIP2 have similar ligand specificity but different binding kinetics.

    abstract：:SH2 domain-containing inositol 5-phosphatases 1 (SHIP1) and 2 (SHIP2) are structurally similar proteins that catalyze the degradation of lipid secondary messenger phosphatidylinositol 3,4,5-triphosphate to produce phosphatidylinositol 3,4-diphosphate. Despite their high sequence identity (51%), SHIP1 and SHIP2 share l...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi9012462

    authors： Zhang Y,Wavreille AS,Kunys AR,Pei D

    更新日期：2009-11-24 00:00:00

  • Chemical mechanism of homoisocitrate dehydrogenase from Saccharomyces cerevisiae.

    abstract：:Homoisocitrate dehydrogenase (HIcDH, 3-carboxy-2-hydroxyadipate dehydrogenase) catalyzes the fourth reaction of the alpha-aminoadipate pathway for lysine biosynthesis, the conversion of homoisocitrate to alpha-ketoadipate using NAD as an oxidizing agent. A chemical mechanism for HIcDH is proposed on the basis of the p...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi702361j

    authors： Lin Y,Volkman J,Nicholas KM,Yamamoto T,Eguchi T,Nimmo SL,West AH,Cook PF

    更新日期：2008-04-01 00:00:00

  • Characterization of human calcitonin fibrillation in aqueous urea solution by 1H NMR spectroscopy.

    abstract：:The inhibitory effects of urea on the normally rapid fibrillation of human calcitonin (hCT) were investigated by 1H NMR. From subtle differences in the chemical shift of hCT in the presence and absence of urea, the occurrence of weak interactions between urea and hCT was confirmed. The chemical shifts on the NH and C ...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi961013l

    authors： Kanaori K,Nosaka AY

    更新日期：1996-10-01 00:00:00

  • Mechanism of DNA-dependent protein kinase inhibition by cis-diamminedichloroplatinum(II)-damaged DNA.

    abstract：:We have determined the mechanism of DNA-dependent protein kinase (DNA-PK) inhibition by cis-diamminedichloroplatinum(II)-(cisplatin-) damaged DNA. We previously have demonstrated that Ku, the DNA binding subunit of DNA-PK, is capable of binding to DNA duplexes globally damaged with cisplatin but was unable to stimulat...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi963124q

    authors： Turchi JJ,Patrick SM,Henkels KM

    更新日期：1997-06-17 00:00:00

  • Mechanistic studies of the methyltransferase from Clostridium thermoaceticum: origin of the pH dependence of the methyl group transfer from methyltetrahydrofolate to the corrinoid/iron-sulfur protein.

    abstract：:A methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase (MeTr) from Clostridium thermoaceticum catalyzes the transfer of the N5 methyl group from (6S)-methyltetrahydrofolate (CH3-H4folate) to the cobalt center of a corrinoid/iron-sulfur protein (C/Fe-SP). The methylcobamide product is the first in a s...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00046a013

    authors： Zhao S,Roberts DL,Ragsdale SW

    更新日期：1995-11-21 00:00:00

  • Inhibitor Bound Crystal Structures of Bacterial Nitric Oxide Synthase.

    abstract：:Nitric oxide generated by bacterial nitric oxide synthase (NOS) increases the susceptibility of Gram-positive pathogens Staphylococcus aureus and Bacillus anthracis to oxidative stress, including antibiotic-induced oxidative stress. Not surprisingly, NOS inhibitors also improve the effectiveness of antimicrobials. Dev...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/acs.biochem.5b00431

    authors： Holden JK,Dejam D,Lewis MC,Huang H,Kang S,Jing Q,Xue F,Silverman RB,Poulos TL

    更新日期：2015-07-07 00:00:00

  • Gangliosides as markers of cortisone-sensitive and cortisone-resistant rabbit thymocytes: characterization of thymus-specific gangliosides and preferential changes of particular gangliosides in the thymus of cortisone-treated rabbits.

    abstract：:Neutral glycosphingolipids and gangliosides in rabbit thymus, spleen, bone marrow, and erythrocyte ghosts were analyzed by conventional chemical and enzymatic procedures and negative ion fast atom bombardment mass spectrometry (FABMS). Thymus gangliosides showed a characteristic composition. Major gangliosides compris...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00352a023

    authors： Iwamori M,Kiguchi K,Kanno J,Kitagawa M,Nagai Y

    更新日期：1986-02-25 00:00:00

  • Metal-selective DNA-binding response of Escherichia coli NikR.

    abstract：:The NikR transcription factor from Escherichia coli is a Ni(II)-dependent repressor that regulates production of the nickel ion transporter encoded by the nik operon. In the previous paper in this issue (Wang, S. C., Dias, A., Bloom, S. L., and Zamble, D. B. (2004) Selectivity of Metal Binding and Metal-Induced Stabil...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi049404k

    authors： Bloom SL,Zamble DB

    更新日期：2004-08-10 00:00:00

  • Molecular architecture of DesI: a key enzyme in the biosynthesis of desosamine.

    abstract：:Desosamine is a 3-(dimethylamino)-3,4,6-trideoxyhexose found, for example, in such macrolide antibiotics as erthyromycin, azithromycin, and clarithromycin. The efficacies of these macrolide antibiotics are markedly reduced in the absence of desosamine. In the bacterium Streptomyces venezuelae, six enzymes are required...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi700751d

    authors： Burgie ES,Holden HM

    更新日期：2007-08-07 00:00:00

  • The reactivity of heme in biological systems: autocatalytic formation of both tyrosine-heme and tryptophan-heme covalent links in a single protein architecture.

    abstract：:We have previously shown that introduction of an engineered Met160 residue in ascorbate peroxidase (S160M variant) leads to the formation of a covalent link between Met160 and the heme vinyl group [Metcalfe, C. L., et al. (2004) J. Am. Chem. Soc. 126, 16242-16248]. In this work, we have used electronic spectroscopy, H...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi7015316

    authors： Pipirou Z,Bottrill AR,Svistunenko DA,Efimov I,Basran J,Mistry SC,Cooper CE,Raven EL

    更新日期：2007-11-20 00:00:00

  • Probing adenine rings and backbone linkages using base specific isotope-edited Raman spectroscopy: application to group II intron ribozyme domain V.

    abstract：:Raman difference spectroscopy is used to probe the properties of a 36-nt RNA molecule, "D5", which lies at the heart of the catalytic apparatus in group II introns. For D5 that has all of its adenine residues labeled with (13)C and (15)N and utilizing Raman difference spectroscopy, we identify the conformationally sen...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi902117w

    authors： Chen Y,Eldho NV,Dayie TK,Carey PR

    更新日期：2010-04-27 00:00:00

  • The linker between SH2 and kinase domains positively regulates catalysis of the Tec family kinases.

    abstract：:Tec family nonreceptor tyrosine kinases are key immunological enzymes that control processes that range from T and B cell development to reorganization of the actin cytoskeleton. The full-length Tec kinases have been resistant to crystallization. This lack of structural data and the paucity of in vitro biochemical dat...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi602512e

    authors： Joseph RE,Min L,Andreotti AH

    更新日期：2007-05-08 00:00:00

  • Acquisition of an insertion peptide for efficient aminoacylation by a halophile tRNA synthetase.

    abstract：:Enzymes of halophilic organisms contain unusual peptide motifs that are absent from their mesophilic counterparts. The functions of these halophile-specific peptides are largely unknown. Here we have identified an unusual peptide that is unique to several halophile archaeal cysteinyl-tRNA synthetases (CysRS), which ca...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi0521386

    authors： Evilia C,Hou YM

    更新日期：2006-06-06 00:00:00

  • Solid-state nuclear magnetic resonance evidence for parallel and antiparallel strand arrangements in the membrane-associated HIV-1 fusion peptide.

    abstract：:The HIV-1 fusion peptide serves as a useful model system for understanding viral/target cell fusion, at least to the lipid-mixing stage. Previous solid-state NMR studies have shown that the membrane-bound HIV-1 fusion peptide adopts an extended conformation in a lipid mixture close to that of host cells of the virus. ...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi0348157

    authors： Yang J,Weliky DP

    更新日期：2003-10-14 00:00:00

  • Formation of monomeric S100B and S100A11 proteins at low ionic strength.

    abstract：:The S100 proteins comprise a group of EF-hand proteins that undergo a calcium-induced conformational change allowing them to interact with other proteins and produce a biological response. A unique feature of these proteins is the fact that they can form both homo- and heterodimers independent of calcium binding. The ...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi802086a

    authors： Marlatt NM,Boys BL,Konermann L,Shaw GS

    更新日期：2009-03-10 00:00:00

  • Isolation and characterization of a human colon carcinoma-secreted enzyme with pancreatic ribonuclease-like activity.

    abstract：:A ribonuclease was isolated from serum-free supernatants of the human colon adenocarcinoma cell line HT-29. It was purified by cation-exchange and C18 reversed-phase high-performance liquid chromatography. The protein is basic, has a molecular weight of approximately 16,000, and has an amino acid composition that is s...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00371a002

    authors： Shapiro R,Fett JW,Strydom DJ,Vallee BL

    更新日期：1986-11-18 00:00:00

  • Dissecting cytochrome P450 3A4-ligand interactions using ritonavir analogues.

    abstract：:Cytochrome P450 3A4 (CYP3A4) inhibitors ritonavir and cobicistat, currently administered to HIV patients as pharmacoenhancers, were designed on the basis of the chemical structure/activity relationships rather than the CYP3A4 crystal structure. To better understand the structural basis for CYP3A4 inhibition and the li...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi4005396

    authors： Sevrioukova IF,Poulos TL

    更新日期：2013-07-02 00:00:00

  • Perturbation of microtubule polymerization by quercetin through tubulin binding: a novel mechanism of its antiproliferative activity.

    abstract：:The dietary flavonoid quercetin has a broad range of biological activities, including potent antitumor activity against several types of tumors. Recently, it has been shown that quercetin inhibits cancer cells proliferation by depleting cellular microtubules and perturbing cellular microtubule functions. However, the ...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi025952r

    authors： Gupta K,Panda D

    更新日期：2002-10-29 00:00:00

  • Polyamide nucleic acid targeted to the primer binding site of the HIV-1 RNA genome blocks in vitro HIV-1 reverse transcription.

    abstract：:We report here that polyamide nucleic acid (PNA) as well as a polyamide nucleic acid-DNA chimera complementary to the primer binding site of the HIV-1 genome can completely block priming by tRNA3Lys and consequently the in vitro initiation of reverse transcription by HIV-1 RT. Conventional heating and cooling is not r...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi972197m

    authors： Lee R,Kaushik N,Modak MJ,Vinayak R,Pandey VN

    更新日期：1998-01-20 00:00:00

  • Conformation and stability of the constant fragment of the immunoglobulin light chain containing an intramolecular mercury bridge.

    abstract：:The constant fragment of the immunoglobulin light chain in which the intramolecular disulfide bond is reduced (reduced CL fragment) assumes a conformation very similar to that of the intact CL fragment and contains two sulfhydryl groups buried in the interior of the molecule [Goto, Y., & Hamaguchi, K. (1979) J. Bioche...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00358a013

    authors： Goto Y,Hamaguchi K

    更新日期：1986-05-20 00:00:00

  • Another role for CO with nitrogenase? CO stimulates hydrogen evolution catalyzed by variant Azotobacter vinelandii Mo-nitrogenases.

    abstract：:A likely entry/exit path for nitrogenase substrates, products, and/or protons involves residues α277(Arg), α192(Ser), and α356(Gly), all of which are highly conserved among MoFe proteins from different organisms. The α192(Ser) and α277(Arg) residues form part of a hydrogen-bonded network that also involves α195(His), ...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi500546k

    authors： Fisher K,Hare ND,Newton WE

    更新日期：2014-10-07 00:00:00

  • Effect of deoxyribonucleic acid on the production of reduced oxygen by bleomycin and iron.

    abstract：:The binding of bleomycin to DNA in the presence and absence of ferric iron was measured by fluorescence spectroscopy. In millimolar concentrations of tris(hydroxymethyl)aminomethane, pH 7.5, approximately 80% of the bleomycin binds to DNA. Ferric iron seems to have no significant effect on the binding of DNA to bleomy...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00531a021

    authors： Caspary WJ,Lanzo DA,Niziak C

    更新日期：1982-01-19 00:00:00

  • X-ray spectroscopy of the iron site in soybean lipoxygenase-1: changes in coordination upon oxidation or addition of methanol.

    abstract：:Iron K-edge X-ray spectroscopy (XANES and EXAFS) was used to study iron coordination in frozen solutions of soybean lipoxygenase-1 (SLO). The intensity of the 1s-->3d pre-edge transition of native iron(II) lipoxygenase is greater than what was found for six-coordinate high-spin iron(II) model complexes, but comparable...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00254a011

    authors： Scarrow RC,Trimitsis MG,Buck CP,Grove GN,Cowling RA,Nelson MJ

    更新日期：1994-12-20 00:00:00

  • Activity screening of carrier domains within nonribosomal peptide synthetases using complex substrate mixtures and large molecule mass spectrometry.

    abstract：:For screening a pool of potential substrates that load carrier domains found in nonribosomal peptide synthetases, large molecule mass spectrometry is shown to be a new, unbiased assay. Combining the high resolving power of Fourier transform mass spectrometry with the ability of adenylation domains to select their own ...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi052333k

    authors： Dorrestein PC,Blackhall J,Straight PD,Fischbach MA,Garneau-Tsodikova S,Edwards DJ,McLaughlin S,Lin M,Gerwick WH,Kolter R,Walsh CT,Kelleher NL

    更新日期：2006-02-14 00:00:00

  • Intramolecular disulfide loop formation in a peptide containing two cysteines.

    abstract：:The cyanogen bromide fragment comprising residues 115-181 of Kunitz soybean trypsin inhibitor is a soluble random-coil peptide at pH 7 containing two cysteines separated by eight other amino acids in the primary sequence. Four of the six rate constants have been determined for the three disulfide exchange reactions be...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi00377a005

    authors： Snyder GH

    更新日期：1987-02-10 00:00:00

  • Inhibition of apolipoprotein AI gene expression by tumor necrosis factor alpha: roles for MEK/ERK and JNK signaling.

    abstract：:Plasma high-density lipoprotein and apolipoprotein AI (apoAI) levels are suppressed by tumor necrosis factor alpha. To determine the molecular mechanisms responsible for the effect of TNF alpha on the apoAI promoter activity, HepG2 cells were exposed to both genetic and pharmacological modulators of TNF alpha-mediated...

    journal_title：Biochemistry

    pub_type： 杂志文章

    doi：10.1021/bi0518040

    authors： Beers A,Haas MJ,Wong NC,Mooradian AD

    更新日期：2006-02-21 00:00:00