Linker histone interaction shows divalent character with both supercoiled and linear DNA.

Abstract:

:The interaction of linker histone H1 with both linear and superhelical double-stranded DNA has been investigated at low ionic strengths. Gel mobility retardation experiments demonstrate strikingly different behavior for the two forms of DNA. First, the experiments strongly suggest that linker histone binds to superhelical DNA in a negatively cooperative mode. In contrast, binding of linker histone to linear DNA under the conditions employed here shows no cooperativity. Second, binding of linker histone to linear DNA results in aggregation of histone-DNA complexes, even at very low levels of input histone H1. Because H1 has been shown to interact as a monomer, this aggregation is evidence of the divalent character of the linker histone, for without H1's ability to bind to two duplex strands of DNA, aggregation could not occur. Although aggregation can be made to occur with superhelical DNA, it can do so only at near-saturation levels of input histone H1. Finally, in direct competition, linker histone binds to superhelical DNA to the complete exclusion of linear DNA, indicating that the linker histone's function is related to the crossover structures that differentiate superhelical DNA from linear DNA. We develop a model that explains the observed behavior of binding of linker histone to superhelical DNA that is consistent with both the divalent character of the linker histone and the negative cooperativity by which linker histone and superhelical DNA interact.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Ellen TP,van Holde KE

doi

10.1021/bi0497704

subject

Has Abstract

pub_date

2004-06-22 00:00:00

pages

7867-72

issue

24

eissn

0006-2960

issn

1520-4995

journal_volume

43

pub_type

杂志文章
  • Redefinition of the carbohydrate specificity of Erythrina corallodendron lectin based on solid-phase binding assays and molecular modeling of native and recombinant forms obtained by site-directed mutagenesis.

    abstract::Binding of the N-acetyllactosamine-specific lectin from Erythrina corallodendron (ECorL) to four glycosphingolipids has been tested using the microtiter well assay. The role of several amino acids in the binding site region was studied by combining binding assays and molecular modeling for native and recombinant forms...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi962231h

    authors: Moreno E,Teneberg S,Adar R,Sharon N,Karlsson KA,Angström J

    更新日期:1997-04-15 00:00:00

  • The 43-kilodalton protein of Torpedo nicotinic postsynaptic membranes: purification and determination of primary structure.

    abstract::The primary structure of the 43-kilodalton peripheral membrane protein (43-kDa protein) of Torpedo nicotinic postsynaptic membrane has been determined. The 43-kDa protein, which was isolated by preparative sodium dodecyl sulfate-polyacrylamide gel electrophoresis, has an amino terminus resistant to Edman degradation, ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00396a034

    authors: Carr C,McCourt D,Cohen JB

    更新日期:1987-11-03 00:00:00

  • Incorrect folding of steroidogenic acute regulatory protein (StAR) in congenital lipoid adrenal hyperplasia.

    abstract::Steroidogenic acute regulatory protein (StAR) rapidly stimulates the movement of cholesterol into adrenal and gonadal mitochondria to mediate the acute steroidogenic response; StAR mutations cause potentially lethal congenital lipoid adrenal hyperplasia (lipoid CAH). Bacterially expressed wild-type StAR and four amino...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980588a

    authors: Bose HS,Baldwin MA,Miller WL

    更新日期:1998-07-07 00:00:00

  • A new chemical mechanism catalyzed by a mutated aldehyde dehydrogenase.

    abstract::NAD(P) aldehyde dehydrogenases (EC 1.2.1.3) are a family of enzymes that oxidize a wide variety of aldehydes into acid or activated acid compounds. Using site-directed mutagenesis, the essential nucleophilic Cys 149 in the NAD-dependent phosphorylating glyceraldehyde-3-phosphate dehydrogenase from Escherichia coli has...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00164a033

    authors: Corbier C,Della Seta F,Branlant G

    更新日期:1992-12-15 00:00:00

  • Antisense L/D-oligodeoxynucleotide chimeras: nuclease stability, base-pairing properties, and activity at directing ribonuclease H.

    abstract::Ultraviolet thermal denaturation studies substantiate our earlier hypothesis that substitution of a L-nucleotide residue for a D-nucleotide within a DNA duplex permits a stable structure in which all bases are paired through Watson-Crick hydrogen bonds (Damha, M. J., Giannaris, P. A., Marfey, P., & Reid, L. S. (1991) ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00191a015

    authors: Damha MJ,Giannaris PA,Marfey P

    更新日期:1994-06-28 00:00:00

  • Replication of antibiotic resistance plasmid R6K DNA in vitro.

    abstract::A soluble extract prepared from cells of an Escherichia coli strain carrying the antibiotic resistance plasmid R6K is capable of carrying out the complete process of R6K DNA replication. DNA synthesis in vitro is dependent on the four deoxyribo- and ribonucleotide triphosphates and is sensitive to rifampin and strepto...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00606a017

    authors: Inuzuka M,Helinski DR

    更新日期:1978-06-27 00:00:00

  • Hidden Conformational States and Strange Temperature Optima in Enzyme Catalysis.

    abstract::The existence of temperature optima in enzyme catalysis that occur before protein melting sets in can be described by different types of kinetic models. Such optima cause distinctly curved Arrhenius plots and have, for example, been observed in several cold-adapted enzymes from psychrophilic species. The two main expl...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.0c00705

    authors: Åqvist J,Sočan J,Purg M

    更新日期:2020-10-13 00:00:00

  • Structural Role of the First Four Transmembrane Helices in ZntA, a P1B-Type ATPase from Escherichia coli.

    abstract::ZntA from Escherichia coli confers resistance to toxic concentrations of Pb2+, Zn2+, and Cd2+. It is a member of the P1B-ATPase transporter superfamily, which includes the human Cu+-transporting proteins ATP7A and ATP7B. P1B-type ATPases typically have a hydrophilic N-terminal metal-binding domain and eight transmembr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.0c00770

    authors: Roberts CS,Muralidharan S,Ni F,Mitra B

    更新日期:2020-12-01 00:00:00

  • HlyC, the internal protein acyltransferase that activates hemolysin toxin: the role of conserved tyrosine and arginine residues in enzymatic activity as probed by chemical modification and site-directed mutagenesis.

    abstract::Internal fatty acylation of proteins is a recognized means of modifying biological behavior. Escherichia coli hemolysin A (HlyA), a toxic protein, is transcribed as a nontoxic protein and made toxic by internal acylation of two lysine residue epsilon-amino groups; HlyC catalyzes the acyl transfer from acyl-acyl carrie...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi990138y

    authors: Trent MS,Worsham LM,Ernst-Fonberg ML

    更新日期:1999-07-06 00:00:00

  • Molecular mechanisms and binding site location for the noncompetitive antagonist crystal violet on nicotinic acetylcholine receptors.

    abstract::We investigated the molecular mechanisms and the binding site location for the fluorophor crystal violet (CrV), a noncompetitive antagonist of the nicotinic acetylcholine receptor (AChR). To this end, radiolabeled competition binding, fluorescence spectroscopy, Schild-type analysis, patch-clamp recordings, and molecul...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi051752e

    authors: Arias HR,Bhumireddy P,Spitzmaul G,Trudell JR,Bouzat C

    更新日期:2006-02-21 00:00:00

  • Evidence that highly conserved residues of transmembrane segment 6 of Escherichia coli MntH are important for transport activity.

    abstract::Nramp (natural resistance-associated macrophage protein) family members have been characterized in mammals, yeast, and bacteria as divalent metal ion/H(+) symporters. In previous work, a bioinformatic approach was used for the identification of residues that are conserved within the Nramp family [Haemig, H. A., and Br...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi100320y

    authors: Haemig HA,Moen PJ,Brooker RJ

    更新日期:2010-06-08 00:00:00

  • Deoxyribonucleic acid synthesis in isolated chloroplasts and chloroplast extracts of maize.

    abstract::Isolated chloroplasts are capable of synthesizing chloroplast DNA in the presence of Mg2+ and deoxynucleoside triphosphates. The in vitro reaction proceeds for at least 60 min and is inhibited by KC1 and N-ethylmaleimide. Stretches of several hundred nucleotides in length are synthesized within an hour. Little or no i...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00257a014

    authors: Zimmermann W,Weissbach A

    更新日期:1982-07-06 00:00:00

  • 2H and 31P NMR study of the interaction of general anesthetics with phosphatidylcholine membranes.

    abstract::The effect of the general anesthetics alpha-chloralose and chloral hydrate as well as the nonanesthetic beta-chloralose on the order of phosphatidylcholine and phosphatidylcholine-cholesterol liposomes has been examined by 2H nuclear magnetic resonance. Chloral hydrate interacts with the hydrophilic head-group region,...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00346a019

    authors: Forrest BJ,Mattai J

    更新日期:1985-12-03 00:00:00

  • Identification of a novel archaebacterial thioredoxin: determination of function through structure.

    abstract::As part of a high-throughput, structural proteomic project we have used NMR spectroscopy to determine the solution structure and ascertain the function of a previously unknown, conserved protein (MtH895) from the thermophilic archeon Methanobacterium thermoautotrophicum. Our findings indicate that MtH895 contains a ce...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0115176

    authors: Bhattacharyya S,Habibi-Nazhad B,Amegbey G,Slupsky CM,Yee A,Arrowsmith C,Wishart DS

    更新日期:2002-04-16 00:00:00

  • Pathways of Metabolite-Related Damage to a Synthetic p53 Gene Exon 7 Oligonucleotide Using Magnetic Enzyme Bioreactor Beads and LC-MS/MS Sequencing.

    abstract::Reactive metabolites of environmental chemicals and drugs can cause site specific damage to the p53 tumor suppressor gene in a major pathway for genotoxicity. We report here a high-throughput, cell-free, 96-well plate magnetic bead-enzyme system interfaced with LC-MS/MS sequencing for bioactivating test chemicals and ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.8b00271

    authors: Malla S,Kadimisetty K,Jiang D,Choudhary D,Rusling JF

    更新日期:2018-07-03 00:00:00

  • Novel inactivators of serine proteases based on 6-chloro-2-pyrone.

    abstract::The interaction of serine protease (esterases) with 6-chloro-2-pyrones was investigated. Time-dependent inactivation of chymotrypsin, alpha-lytic protease, pig liver elastase, and cholinesterase was found with 3- and 5-benzyl-6-chloro-2-pyrone, as well as 3- and 5-methyl-6-chloro-2-pyrone. No inactivation was observed...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00282a034

    authors: Westkaemper RB,Abeles RH

    更新日期:1983-06-21 00:00:00

  • Studies of the cryptic allylic pyrophosphate isomerase activity of trichodiene synthase using the anomalous substrate 6,7-dihydrofarnesyl pyrophosphate.

    abstract::Two enantiomeric analogues of farnesyl pyrophosphate (1) were tested as inhibitors and anomalous substrates of trichodiene synthase, which catalyzes the cyclization of trans,trans-farnesyl pyrophosphate (1) to the sesquiterpene hydrocarbon trichodiene (2). The reaction has been shown to involve preliminary isomerizati...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00475a011

    authors: Cane DE,Pawlak JL,Horak RM

    更新日期:1990-06-12 00:00:00

  • Identification of a cis-acting negative DNA element which modulates human hepatic triglyceride lipase gene expression.

    abstract::The promoter fragment -1550/+129 of the human hepatic triglyceride lipase (HTGL) gene drives the expression of the CAT gene in HepG2 cells, albeit at very low levels. Transient transfections in HepG2 and HeLa cells of 5' deletion constructs indicated that the regulatory elements that control this expression are locate...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00088a018

    authors: Hadzopoulou-Cladaras M,Cardot P

    更新日期:1993-09-21 00:00:00

  • Manganese-binding proteins of the oxygen-evolving complex.

    abstract::The extrinsic 33-kDa protein (P33) was cross-linked covalently to the binding site on P33-depleted PSII preparations which is responsible for reconstitution of photosynthetic water oxidation after PSII preparations have been washed with 1 M CaCl2. Conditions were found in which more than half of the cross-linked prote...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00439a033

    authors: Mei R,Green JP,Sayre RT,Frasch WD

    更新日期:1989-06-27 00:00:00

  • Inhibition of pyruvate dehydrogenase multienzyme complex from Escherichia coli with a bifunctional arsenoxide: selective inactivation of lipoamide dehydrogenase.

    abstract::The bifunctional reagent p-[(bromoacetyl)-amino]phenyl arsenoxide (BrCH2CONHPhAsO) in the presence of excess reduced nicotinamide adenine dinucleotide has been shown to cause the irreversible active site directed inactivation of the lipoamide dehydrogenase (E3) component of the pyruvate dehydrogenase multienzyme (PD) ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00515a018

    authors: Adamson SR,Stevenson KJ

    更新日期:1981-06-09 00:00:00

  • The three-dimensional structure of the gallium complex of azoverdin, a siderophore of Azomonas macrocytogenes ATCC 12334, determined by NMR using residual dipolar coupling constants.

    abstract::In iron-deficient conditions, Azomonas macrocytogenes ATCC 12334 excretes a fluorescent siderophore called azoverdin, which is composed of a six-amino-acid peptide chain linked to a chromophore. Azoverdin chelates iron(III) very strongly, solubilizing it and transporting it back into the cells using an outer-membrane ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi025990a

    authors: Wasielewski E,Atkinson RA,Abdallah MA,Kieffer B

    更新日期:2002-10-15 00:00:00

  • An allosteric intramolecular PDZ-PDZ interaction modulates PTP-BL PDZ2 binding specificity.

    abstract::PDZ (acronym of the synapse-associated protein PSD-95/SAP90, the septate junction protein Discs-large, and the tight junction protein ZO-1) domains are abundant small globular protein interaction domains that mainly recognize the carboxyl termini of their target proteins. Detailed knowledge on PDZ domain binding speci...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi700954e

    authors: van den Berk LC,Landi E,Walma T,Vuister GW,Dente L,Hendriks WJ

    更新日期:2007-11-27 00:00:00

  • Reconstitution of a defunct glycolytic pathway via recruitment of ambiguous sugar kinases.

    abstract::During a recent investigation of the persistence of substrate ambiguity in contemporary enzymes, we identified three distinct ambiguous sugar kinases embedded within the modern Escherichia coli genome [Miller, B. G., and Raines, R. T. (2004) Biochemistry 43, 6387-6392]. These catalysts are the YajF, YcfX, and NanK pol...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0506268

    authors: Miller BG,Raines RT

    更新日期:2005-08-16 00:00:00

  • A potent oligosaccharyl transferase inhibitor that crosses the intracellular endoplasmic reticulum membrane.

    abstract::Recent work has resulted in the development of potent inhibitors of oligosaccharyl transferase (OT), the enzyme that catalyzes the cotranslational glycosylation of asparagine [Hendrickson, T. L., Spencer, J. R., Kato, M., and Imperiali, B. (1996) J. Am. Chem. Soc. 118, 7636-7637; Kellenberger, C., Hendrickson, T. L., ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi982740e

    authors: Eason PD,Imperiali B

    更新日期:1999-04-27 00:00:00

  • Two-dimensional 1H NMR studies of cytochrome c: hydrogen exchange in the N-terminal helix.

    abstract::The hydrogen exchange behavior of the N-terminal helical segment in horse heart cytochrome c was studied in both the reduced and the oxidized forms by use of two-dimensional nuclear magnetic resonance methods. The amide protons of the first six residues are not H bonded and exchange rapidly with solvent protons. The m...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00353a025

    authors: Wand AJ,Roder H,Englander SW

    更新日期:1986-03-11 00:00:00

  • Pressure effects and thermal stability of myosin rods and rod minifilaments: fluorescence and circular dichroism studies.

    abstract::In the present study hydrostatic pressure was applied upon both skeletal myosin rod molecules and rod minifilaments to learn more of the intra- and intermolecular interaction behavior of myosin. Applied pressure disassembled the rod minifilaments into individual rod molecules and dissociated each myosin rod molecule i...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00184a028

    authors: King L,Liu CC,Lee RF

    更新日期:1994-05-10 00:00:00

  • The difference in the binding of phosphatidylinositol distinguishes MAP2 from MAP2C and Tau.

    abstract::The interactions of bovine brain MAP2 and tau, recombinant murine MAP2C, and recombinant human tau with phosphatidylinositol vesicles yield apparent Kd values of 51 +/- 6 nM, 2.4 +/- 0.6 microM, 1.4 +/- 0.1 microM, and 1.6 +/- 0.2 microM, respectively. Examinations of the binding of MAP2 and/or MAP2C to phosphatidylch...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00192a009

    authors: Surridge CD,Burns RG

    更新日期:1994-07-05 00:00:00

  • Orientation of Human Microprocessor on Primary MicroRNAs.

    abstract::Single-stranded microRNAs (miRNAs) regulate gene expression by triggering mRNA degradation and/or inhibiting mRNA translation. miRNAs play important roles in various critical cellular processes and are associated with numerous human diseases, including cancer and neurodegenerative diseases. miRNA sequences are embedde...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/acs.biochem.8b00944

    authors: Nguyen HM,Nguyen TD,Nguyen TL,Nguyen TA

    更新日期:2019-01-29 00:00:00

  • Identification of a nucleoside triphosphate binding site on calf thymus RNA polymerase II.

    abstract::A nucleoside triphosphate binding site on calf thymus RNA polymerase II was identified by using photoaffinity analogues of adenosine 5'-triphosphate and guanosine 5'-triphosphate. Both radiolabeled 8-azidoadenosine 5'-triphosphate (8-N3ATP) and radiolabeled 8-azidoguanosine 5'-triphosphate (8-N3GTP) bound to a single ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00349a038

    authors: Freund E,McGuire PM

    更新日期:1986-01-14 00:00:00

  • NMR study of nitrogen-15-labeled Escherichia coli valine transfer RNA.

    abstract::1,3-15N-Labeled uracil was synthesized chemically and used to prepare labeled Escherichia coli tRNA(Val) biosynthetically. 500-MHz measurements of 15N and proton chemical shift were obtained, for all uridine and uridine-related bases, by heteronuclear multiple-quantum coherence spectroscopy. All the uracil NH group re...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00166a013

    authors: Choi BS,Redfield AG

    更新日期:1992-12-29 00:00:00