Probing the nucleotide binding sites of axonemal dynein with the fluorescent nucleotide analogue 2'(3')-O-(-N-Methylanthraniloyl)-adenosine 5'-triphosphate.

Abstract:

:MantATP [2'(3')-O-(-N-methylanthraniloyl)-adenosine 5'-triphosphate] was employed as a fluorescence probe of the nucleotide-binding sites of dynein from sea urchin sperm flagella. MantATP binds specifically with enhanced fluorescence (approximately 2.2-fold), homogeneous lifetime (8.4 ns), and high anisotropy (r approximately 0.38) to dynein and can be displaced by ATP and ADP added to the medium. The association constants of mantATP complexed with dynein were determined from anisotropy titration data. Using a multiple stepwise equilibrium model, the average values of the first two association constants are K1 = 2.7 x 10(5) M-1 and K2 = 1.8 x 10(4) M-1. This value of K1 is 7-8 times higher than that found previously for unsubstituted ATP, whereas K2 is little changed [Mocz and Gibbons (1996) Biochemistry 35, 9204-9211]. The lower-affinity binding sites, K3 and K4, observed previously could not be studied with mantATP within the available protein concentrations. The alpha and beta heavy chain subfractions have binding parameters similar to those of intact dynein. Formation of the stable ternary complex of mantATP with dynein and monomeric vanadate is accompanied by only a moderate increase in the binding affinities. Oligomeric vanadate reduces the binding affinities by approximately 50%. Addition of TritonX-100, methanol, or various salts changes the binding affinities by up to 50%, suggesting that the microenvironment of the nucleotide-binding sites involves significant contributions from both polar and apolar interactions. The distinct affinities of the individual binding sites are consistent with a physiological role in regulating nucleotide binding.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Mocz G,Helms MK,Jameson DM,Gibbons IR

doi

10.1021/bi9730184

subject

Has Abstract

pub_date

1998-07-07 00:00:00

pages

9862-9

issue

27

eissn

0006-2960

issn

1520-4995

pii

bi9730184

journal_volume

37

pub_type

杂志文章
  • The conserved residues glutamate-37, aspartate-100, and arginine-269 are important for the structural stabilization of Escherichia coli aspartate transcarbamoylase.

    abstract::Aspartate transcarbamoylase from Escherichia coli is a dodecameric enzyme consisting of two trimeric catalytic subunits and three dimeric regulatory subunits. The X-ray structure of this enzyme indicates that the side chains of His-41, Asp-100, and Asp-90 from one catalytic chain form interactions with the side chains...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00089a034

    authors: Baker DP,Kantrowitz ER

    更新日期:1993-09-28 00:00:00

  • Cooperative stabilization of transthyretin by clusterin and diflunisal.

    abstract::The circulating protein transthyretin (TTR) can unfold, oligomerize, and form highly structured amyloid fibrils that are deposited in tissues, causing organ damage and disease. This pathogenic process is caused by a heritable TTR point mutation in cases of familial TTR-related amyloidosis or wild-type TTR in cases of ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi5011249

    authors: Greene MJ,Klimtchuk ES,Seldin DC,Berk JL,Connors LH

    更新日期:2015-01-20 00:00:00

  • Sequence of a rabbit anti-Micrococcus lysodeikticus antibody light chain.

    abstract::The complete sequence of rabbit antibody light-chain L 120 has been elucidated. The antibody was raised against Micrococcus lysodeikticus bacteria and is specific for the external part of the cell wall. All protein used in this work was obtained from a single 50-mL bleeding. The variable region of L 120 is compared to...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00613a031

    authors: Van Hoegaerden M,Strosberg AD

    更新日期:1978-10-03 00:00:00

  • Identification of Tyr413 as an active site residue in the flavoprotein tryptophan 2-monooxygenase and analysis of its contribution to catalysis.

    abstract::The flavoenzyme tryptophan 2-monooxygenase catalyzes the oxidation of tryptophan to indoleacetamide, carbon dioxide, and water. The enzyme is a homologue of l-amino acid oxidase. In the structure of l-amino acid oxidase complexed with aminobenzoate, Tyr372 hydrogen bonds with the carboxylate of the inhibitor in the ac...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi035300i

    authors: Sobrado P,Fitzpatrick PF

    更新日期:2003-12-02 00:00:00

  • Structure, spectroscopic, and redox properties of Rhodobacter sphaeroides reaction centers bearing point mutations near the primary electron donor.

    abstract::Single mutations of three amino acid residues in the vicinity of the primary electron donor, P, in the reaction center (RC) from Rhodobacter (Rb.) sphaeroides were constructed and characterized in order to study the effects of hydrogen-bonding on the physical properties of P. The mutations, Phe M197-->Tyr, Met L248-->...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00210a041

    authors: Wachtveitl J,Farchaus JW,Das R,Lutz M,Robert B,Mattioli TA

    更新日期:1993-11-30 00:00:00

  • Interactions between the mitochondrial adenosinetriphosphatase and periodate-oxidized adenosine 5'-triphosphate, an affinity label for adenosine 5'-triphosphate binding sites.

    abstract::Periodate-oxidized ATP (o-ATP) was prepared as an affinity label of nucleotide binding sites on the chloroform-released ox heart mitochondrial ATPase. In the presence of MgSO4, o-ATP is a substrate for the ATPase. It can act as a reversible, competitive inhibitor of ATPase activity and can also induce an irreversible ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00260a025

    authors: Lowe PN,Beechey RB

    更新日期:1982-08-17 00:00:00

  • Cardiolipin-cholesterol interactions in the liquid-crystalline phase: a steady-state and time-resolved fluorescence anisotropy study with cis- and trans-parinaric acids as probes.

    abstract::The potency of cholesterol to affect the acyl chain order and dynamics of cardiolipin membranes in the liquid-crystalline state was monitored by steady-state and time-resolved fluorescence anisotropy as well as excited-state lifetime measurements with cis- and trans-parinaric acids as probes. Up to a cholesterol mole ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00357a054

    authors: Gallay J,Vincent M

    更新日期:1986-05-06 00:00:00

  • X-ray crystallographic and analytical ultracentrifugation analyses of truncated and full-length yeast copper chaperones for SOD (LYS7): a dimer-dimer model of LYS7-SOD association and copper delivery.

    abstract::Copper-zinc superoxide dismutase (CuZnSOD) acquires its catalytic copper ion through interaction with another polypeptide termed the copper chaperone for SOD. Here, we combine X-ray crystallographic and analytical ultracentrifugation methods to characterize rigorously both truncated and full-length forms of apo-LYS7, ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi992716g

    authors: Hall LT,Sanchez RJ,Holloway SP,Zhu H,Stine JE,Lyons TJ,Demeler B,Schirf V,Hansen JC,Nersissian AM,Valentine JS,Hart PJ

    更新日期:2000-04-04 00:00:00

  • A sequence element necessary for self-cleavage of the antigenomic hepatitis delta RNA in 20 M formamide.

    abstract::The genomic and antigenomic RNAs of hepatitis delta virus are capable of self-cleavage and show no significant sequence similarities to other known self-cleaving RNAs. We have derived an antigenomic delta RNA which cleaves to completion in 15 s in 9 mM magnesium at 37 degrees C and is capable of efficient self-cleavag...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00155a015

    authors: Smith JB,Gottlieb PA,Dinter-Gottlieb G

    更新日期:1992-10-13 00:00:00

  • Analysis of pH-induced structural changes of the isolated extrinsic 33 kilodalton protein of photosystem II.

    abstract::Structural properties of the isolated extrinsic regulatory 33 kDa protein of the water-oxidizing complex were analyzed at different pH values. It was found that (a) titrations of the buffer capacity reveal a characteristic hysteresis effect that is unique for the 33 kDa subunit and is not observed for the other extrin...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi963115h

    authors: Shutova T,Irrgang KD,Shubin V,Klimov VV,Renger G

    更新日期:1997-05-27 00:00:00

  • Structural studies on the active site of Escherichia coli RNA polymerase. 2. Geometrical relationship of the interacting substrates.

    abstract::Since a major function of RNA polymerase must be to bring together substrates in the optimal configuration for internucleotide bond formation, studies have been undertaken to understand the geometrical relationship of the two substrates. A model has been constructed for the geometry of interaction of two ATP molecules...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00477a017

    authors: Beal RB,Pillai RP,Chuknyisky PP,Levy A,Tarien E,Eichhorn GL

    更新日期:1990-06-26 00:00:00

  • Physical basis of the effect of hemoglobin on the 31P NMR chemical shifts of various phosphoryl compounds.

    abstract::The marked difference between the intra- and extracellular 31P NMR chemical shifts of various phosphoryl compounds when added to a red cell suspension may be largely understood in terms of the effects of hemoglobin on the 31P NMR chemical shifts. The presence of [oxy- or (carbonmonoxy)-] hemoglobin inside the red cell...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00424a017

    authors: Kirk K,Kuchel PW

    更新日期:1988-11-29 00:00:00

  • Perturbing the water cavity surrounding the manganese cluster by mutating the residue D1-valine 185 has a strong effect on the water oxidation mechanism of photosystem II.

    abstract::The active site of water oxidation in Photosystem II (PSII) is a Mn4CaO5 cluster that is located in a cavity between the D1 and CP43 protein subunits by which it is coordinated. The remainder of this cavity is filled with water molecules, which serve as a source of substrate and participate in poorly understood hydrog...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi400930g

    authors: Dilbeck PL,Bao H,Neveu CL,Burnap RL

    更新日期:2013-10-01 00:00:00

  • Disulfide Bridging Strategies in Viral and Nonviral Platforms for Nucleic Acid Delivery.

    abstract::Self-assembled nanostructures that are sensitive to environmental stimuli are promising nanomaterials for drug delivery. In this class, disulfide-containing redox-sensitive strategies have gained enormous attention because of their wide applicability and simplicity of nanoparticle design. In the context of nucleic aci...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.0c00860

    authors: Dutta K,Das R,Medeiros J,Thayumanavan S

    更新日期:2021-01-11 00:00:00

  • Effects of Olive Metabolites on DNA Cleavage Mediated by Human Type II Topoisomerases.

    abstract::Several naturally occurring dietary polyphenols with chemopreventive or anticancer properties are topoisomerase II poisons. To identify additional phytochemicals that enhance topoisomerase II-mediated DNA cleavage, a library of 341 Mediterranean plant extracts was screened for activity against human topoisomerase IIα....

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b00162

    authors: Vann KR,Sedgeman CA,Gopas J,Golan-Goldhirsh A,Osheroff N

    更新日期:2015-07-28 00:00:00

  • High-resolution proton nuclear magnetic resonance analysis of conformational properties of biosynthetic actinomycin analogues.

    abstract::High-resolution proton nuclear magnetic resonance (1H NMR) has been used to study the conformation and dynamics of biosynthetic analogues of actinomycin D that have been substituted at one or both of the 3'-amino acids with azetidine-2-carboxylic acid, pipecolic acid, or 4-ketoproline for one or both of the prolines. ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00540a007

    authors: Mirau PA,Shafer RH

    更新日期:1982-05-25 00:00:00

  • Concentration of activated intermediates of the fructose-1,6-bisphosphate aldolase and triosephosphate isomerase reactions.

    abstract::As discovered by Grazi & Trombetta [Grazi, E., & Trombetta, G. (1978) Biochem. J. 175, 361], fructose-1,6-bisphosphate aldolase of rabbit muscle causes the slow formation of inorganic phosphate (Pi) and methylglyoxal when incubated with dihydroxyacetone phosphate (DHAP). In addition, these authors found an acid-labile...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00508a026

    authors: Iyengar R,Rose IA

    更新日期:1981-03-03 00:00:00

  • Altering the reaction specificity of eukaryotic ornithine decarboxylase.

    abstract::Ornithine decarboxylase (ODC) catalyzes the first committed step in the biosynthesis of polyamines, and it has been identified as a drug target for the treatment of African sleeping sickness, caused by Trypanosoma brucei. ODC is a pyridoxal 5'-phosphate (PLP) dependent enzyme and an obligate homodimer. X-ray structura...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi001209s

    authors: Jackson LK,Brooks HB,Osterman AL,Goldsmith EJ,Phillips MA

    更新日期:2000-09-19 00:00:00

  • Nativelike intermediate on the unfolding pathway of pig kidney fructose-1,6-bisphosphatase.

    abstract::The unfolding and dissociation of the tetrameric enzyme fructose-1,6-bisphosphatase from pig kidney by guanidine hydrochloride have been investigated at equilibrium by monitoring enzyme activity, ANS binding, intrinsic (tyrosine) protein fluorescence, exposure of thiol groups, fluorescence of extrinsic probes (AEDANS,...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi034203m

    authors: Reyes AM,Ludwig HC,Yañez AJ,Rodríguez PH,Slebe JC

    更新日期:2003-06-17 00:00:00

  • Bound Compound, Interfacial Water, and Phenyl Ring Rotation Dynamics of a Compound in the DNA Minor Groove.

    abstract::DB2277, a heterocyclic diamidine, is a successful design for mixed base pair (bp) DNA sequence recognition. The compound has a central aza-benzimidazole group that forms two H-bonds with a GC bp that has flanking AT bps. The nuclear magnetic resonance structure of the DB2277-DNA complex with an AAGATA recognition site...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.8b00647

    authors: Harika NK,Wilson WD

    更新日期:2018-08-21 00:00:00

  • P-Bodies: Composition, Properties, and Functions.

    abstract::Processing bodies (P-bodies) are cytoplasmic ribonucleoprotein (RNP) granules primarily composed of translationally repressed mRNAs and proteins related to mRNA decay, suggesting roles in post-transcriptional regulation. P-bodies are conserved in eukaryotic cells and exhibit properties of liquid droplets. However, the...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/acs.biochem.7b01162

    authors: Luo Y,Na Z,Slavoff SA

    更新日期:2018-05-01 00:00:00

  • Importance of domain closure for homotropic cooperativity in Escherichia coli aspartate transcarbamylase.

    abstract::The importance of the interdomain bridging interactions observed only in the R-state structure of Escherichia coli aspartate transcarbamylase between Glu-50 of the carbamoyl phosphate domain with both Arg-167 and Arg-234 of the aspartate domain has been investigated by using site-specific mutagenesis. Two mutant versi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00458a015

    authors: Newton CJ,Kantrowitz ER

    更新日期:1990-02-13 00:00:00

  • Kinetics of Escherichia coli helicase II-catalyzed unwinding of fully duplex and nicked circular DNA.

    abstract::Escherichia coli helicase II (UvrD) protein can initiate unwinding of duplex DNA at blunt ends or nicks, although these reactions require excess protein. We have undertaken kinetic studies of these reactions in order to probe the mechanism of initiation of unwinding. DNA unwinding was monitored directly by using agaro...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00066a039

    authors: Runyon GT,Lohman TM

    更新日期:1993-04-20 00:00:00

  • Ligand binding properties of bacterial hemoglobins and flavohemoglobins.

    abstract::Bacterial hemoglobins and flavohemoglobins share a common globin fold but differ otherwise in structural and functional aspects. The bases of these differences were investigated through kinetic studies on oxygen, carbon monoxide, and nitric oxide binding. The novel bacterial hemoglobins from Clostridium perfringens an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi047389d

    authors: Farrés J,Rechsteiner MP,Herold S,Frey AD,Kallio PT

    更新日期:2005-03-15 00:00:00

  • Structural analysis of calmodulin binding by nNOS inhibitory amphibian peptides.

    abstract::Calmodulin (CaM) is a ubiquitous protein in nature and plays a regulatory role in numerous biological processes, including the upregulation of nitric oxide (NO) synthesis in vivo. Several peptides that prevent NO production by interacting with CaM have been isolated in the cutaneous secretions of Australian amphibians...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi5004124

    authors: Calabrese AN,Bowie JH,Pukala TL

    更新日期:2015-01-20 00:00:00

  • Biochemical characterization of the Cys138Arg substitution associated with the AB variant form of GM2 gangliosidosis: evidence that Cys138 is required for the recognition of the GM2 activator/GM2 ganglioside complex by beta-hexosaminidase A.

    abstract::The function of the GM2 activator protein is to act as a substrate-specific cofactor in the hydrolysis of GM2 ganglioside by beta-hexosaminidase A. Mutations in the gene encoding it result in the AB variant form of GM2 gangliosidosis. One such mutation, Cys138 Arg, results in the mutant protein being retained and degr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi971211s

    authors: Xie B,Rigat B,Smiljanic-Georgijev N,Deng H,Mahuran D

    更新日期:1998-01-20 00:00:00

  • Effects of pH on horse liver aldehyde dehydrogenase: alterations in metal ion activation, number of functioning active sites, and hydrolysis of the acyl intermediate.

    abstract::The reactivity of the mitochondrial (pI = 5) isoenzyme of horse liver aldehyde dehydrogenase was determined by studying the effects of pH on steady-state velocity, burst magnitude, and molecular weight of the enzyme in the absence and presence of Mg2+ ions. The Mg2+ ion activation of the steady-state velocity at pH 7....

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00524a049

    authors: Takahashi K,Weiner H,Filmer DL

    更新日期:1981-10-13 00:00:00

  • Kinetic isotope effects on the oxidation of reduced nicotinamide adenine dinucleotide phosphate by the flavoprotein methylenetetrahydrofolate reductase.

    abstract::Previous work from this laboratory has established that the NADPH-menadione oxidoreductase reaction catalyzed by methylenetetrahydrofolate reductase from pig liver proceeds by Ping Pong Bi Bi kinetics and that the reductive half-reaction is rate limiting in steady-state turnover. We have now shown that methylenetetrah...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00317a027

    authors: Vanoni MA,Matthews RG

    更新日期:1984-10-23 00:00:00

  • Attenuation of DNA-protein interactions associated with intrinsic, sequence-dependent DNA curvature.

    abstract::Inherently curved DNA segments, associated with short runs of adenines, have been identified in many gene regulatory regions, yet their physiological significance remains unknown. The observations reported in this study indicate that intrinsically bent nucleic acid fragments are characterized by substantially attenuat...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00123a019

    authors: Shatzky-Schwartz M,Hiller Y,Reich Z,Ghirlando R,Weinberger S,Minsky A

    更新日期:1992-03-03 00:00:00

  • The Structure of the Bimolecular Complex between Amphotericin B and Ergosterol in Membranes Is Stabilized by Face-to-Face van der Waals Interaction with Their Rigid Cyclic Cores.

    abstract::Amphotericin B (AmB) is a polyene macrolide antibiotic isolated from Streptomyces nodosus. The antifungal activity of AmB can be attributed to the formation of an ion-channel assembly in the presence of ergosterol (Erg), in which there are two different AmB-Erg orientations, parallel and antiparallel, as reported prev...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.6b00193

    authors: Nakagawa Y,Umegawa Y,Matsushita N,Yamamoto T,Tsuchikawa H,Hanashima S,Oishi T,Matsumori N,Murata M

    更新日期:2016-06-21 00:00:00