Purification, characterization, and investigation of the mechanism of aminoglycoside 3'-phosphotransferase type Ia.

Abstract:

:Aminoglycoside 3'-phosphotransferases [APH(3')s] are the most common cause of bacterial high-level resistance to aminoglycoside antibiotics in clinical isolates. A one-step affinity chromatography was used to purify APH(3') type Ia. The kinetic parameters for turnover of seven aminoglycosides and the corresponding minimum inhibitory concentrations for a strain of Escherichia coli harboring APH-(3')-Ia were determined. The enzyme phosphorylates its substrates with kcat/Km values of 10(6)-10(8) M-1 s-1, including substrates such as amikacin and butirosin A which traditionally have been considered poor substrates for this enzyme. The optimal pH for the phosphotransferase activity was observed to be 7.0-7.5. The purified enzyme was found to be prone to dimerization in the absence of a reducing agent. Treatment of the enzyme with trypsin excised a 4 kDa fragment from the N-terminus which contained the amino acid residue Cys-10. The 27 kDa proteolyzed APH(3')-Ia did not dimerize, suggesting that Cys-10 was involved in dimerization via a disulfide bond. The phosphorylated kanamycin A was isolated, and the phosphorylation was confirmed to occur at the 3'-hydroxyl. Furthermore, both APH(3')-Ia and APH(3')-IIa were shown to phosphorylate water ("ATP hydrolase" activity) at a rate of ca. 10(4)-10(6)-fold slower (effect on kcat/Km) than that for the phosphoryl transfer to a typical aminoglycoside. The results of product-inhibition and alternative substrate diagnostics indicate an equilibrium-random mechanism for phosphorylation of aminoglycosides by APH(3')-Ia.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Siregar JJ,Miroshnikov K,Mobashery S

doi

10.1021/bi00039a026

subject

Has Abstract

pub_date

1995-10-03 00:00:00

pages

12681-8

issue

39

eissn

0006-2960

issn

1520-4995

journal_volume

34

pub_type

杂志文章
  • Phase transitions of the purple membranes of Halobacterium halobium.

    abstract::Purple membranes of Halobacterium halobium were studied by differential scanning calorimetry. No transition was detected at temperatures below 70 degrees C. A small endothermic transition was seen at about 80 degrees C and a larger one at 100 degrees C. The larger transition is the irreversible denaturation of bacteri...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00598a026

    authors: Jackson MB,Sturtevant JM

    更新日期:1978-03-07 00:00:00

  • Accessibility and external versus intercalative binding to DNA as assessed by oxygen-induced quenching of the palladium(II)-containing cationic porphyrins Pd(T4) and Pd(tD4).

    abstract::Studies reveal that it is possible to design a palladium(II)-containing porphyrin to bind exclusively by intercalation to double-stranded DNA while simultaneously enhancing the ability to sensitize the formation of singlet oxygen. The comparisons revolve around the cations [5,10,15,20-tetra(N-methylpyridinium-4-yl)por...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi401610t

    authors: Bork MA,Gianopoulos CG,Zhang H,Fanwick PE,Choi JH,McMillin DR

    更新日期:2014-02-04 00:00:00

  • Magnetic circular dichroism properties of reaction center complexes isolated from the zinc-bacteriochlorophyll a-containing purple bacterium Acidiphilium rubrum.

    abstract::Reaction center (RC) complexes isolated from a Zn-bacteriochlorophyll (BChl) a-containing purple bacterium, Acidiphilium rubrum, were characterized by absorption, circular dichroism, and magnetic circular dichroism (MCD) spectroscopy. The oxidized-minus-reduced difference spectra indicated that, in this RC, the Zn-BCh...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi991444e

    authors: Mimuro M,Kobayashi M,Shimada K,Uezono K,Nozawa T

    更新日期:2000-04-11 00:00:00

  • Thermal unfolding and aggregation of human complement protein C9: a differential scanning calorimetry study.

    abstract::The thermotropic behavior of purified human complement protein C9 was investigated by high-sensitivity differential scanning calorimetry. When dissolved in physiological buffers (pH 7.2, 150 mM NaCl), C9 underwent three endothermic transitions with transition temperatures (Tm) centered at about 32, 48, and 53 degrees ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00240a035

    authors: Lohner K,Esser AF

    更新日期:1991-07-02 00:00:00

  • A hydroxyl group at residue 216 is essential for catalysis by human thymidylate synthase.

    abstract::Structural analyses of bacterial thymidylate synthases (TSs) implicate a serine residue corresponding to Ser216 in human TS in hydrogen bond networks that are involved in binding of the nucleotide substrate, 2'-deoxyuridylate (dUMP), and that stabilize a beta-bulge in the protein. Utilizing site-directed mutagenesis, ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi972562+

    authors: Williams AW,Dunlap RB,Berger SH

    更新日期:1998-05-19 00:00:00

  • Thioredoxin reductase-thioredoxin fusion enzyme from Mycobacterium leprae: comparison with the separately expressed thioredoxin reductase.

    abstract::Thioredoxin reductase (TrxR) catalyzes the reduction of thioredoxin (Trx) by NADPH. A unique gene organization of TrxR and Trx has been found in Mycobacterium leprae, where TrxR and Trx are encoded by a single gene and, therefore, are expressed as a fusion protein (MlTrxR-Trx). This fusion enzyme is able to catalyze t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980754e

    authors: Wang PF,Marcinkeviciene J,Williams CH Jr,Blanchard JS

    更新日期:1998-11-17 00:00:00

  • A transition state analogue for two pyruvate metabolizing enzymes, lactate dehydrogenase and alanine dehydrogenase.

    abstract::The synthesis of 5-(2-oxalylethyl)-NADH, a reduced nicotinamide adenine dinucleotide (NADH) derivate with pyruvate covalently attached to the 5 position of the dihydronicotinamide ring over an additional methylene group has been described previously (Trommer, W.E., Blume, H., and Kapmeyer, H. (1976) Justus Liebigs Ann...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00668a012

    authors: Kapmeyer H,Pfleiderer G,Trommer WE

    更新日期:1976-11-16 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

  • Reduction of cytochrome b in mitochondria from yeast lacking coenzyme Q.

    abstract::Mitochondria isolated from coenzyme Q deficient yeast cells had no detectable NADH:cytochrome c reductase or succinate:cytochrome c reductase but had comparable amounts of cytochromes b and c1 as wild-type mitochondria. Addition of succinate to the mutant mitochondria resulted in a slight reduction of cytochrome b; ho...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00372a029

    authors: Clejan L,Beattie DS

    更新日期:1986-12-02 00:00:00

  • Tetrahydrobiopterin-free neuronal nitric oxide synthase: evidence for two identical highly anticooperative pteridine binding sites.

    abstract::The properties of neuronal nitric oxide synthase containing one tetrahydrobiopterin (BH4) per dimer [nNOS(BH4+)] were compared to those of the BH4-free enzyme [nNOS(BH4-)]. The stimulation by BH4 of the formation of L-citrulline at the expense of H2O2 production unambiguously demonstrated that BH4 is essential in coup...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi961931j

    authors: Gorren AC,List BM,Schrammel A,Pitters E,Hemmens B,Werner ER,Schmidt K,Mayer B

    更新日期:1996-12-24 00:00:00

  • Generation of a free alpha-amino group by Raney nickel after 2-nitro-5-thiocyanobenzoic acid cleavage at cysteine residues: application to automated sequencing.

    abstract::The selective reaction of SH containing proteins and peptides with NTCB (2-nitro-5-thiocyanobenzoic acid) has been reported (Degani, Y., & Patchornick, A. (1974) Biochemistry 13, 1; Jacobson, G.A., Schaffer, M.H., Stark, G.R., & Vanaman, T.C. (1973) J. Biol. Chem. 248, 6583). With this reagent, cysteinyl peptide bonds...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00618a022

    authors: Otieno S

    更新日期:1978-12-12 00:00:00

  • Importance of hydrophobic matching for spontaneous insertion of a single-spanning membrane protein.

    abstract::In this study, we have investigated the effect of hydrophobic mismatch between the thickness of the membrane and a transmembrane segment of a protein that directly inserts into the membrane bilayer. For this purpose we used mutants of the single-spanning Pf3 coat protein that can spontaneously insert into Escherichia ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0158674

    authors: Ridder AN,van de Hoef W,Stam J,Kuhn A,de Kruijff B,Killian JA

    更新日期:2002-04-16 00:00:00

  • Effect of insulin on ATP-citrate lyase phosphorylation: regulation of peptide A and peptide B phosphorylations.

    abstract::Insulin decreases multifunctional protein kinase (MFPK) activity in rat adipose tissue [Ramakrishna, S., & Benjamin, W. B. (1988) J. Biol. Chem. 263, 12677-12681]. Insulin also decreases the phosphorylation of peptide B but increases the phosphorylation of peptide A of ATP-citrate lyase (ATP-CL). The mechanism for thi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00428a067

    authors: Ramakrishna S,Murthy KS,Benjamin WB

    更新日期:1989-01-24 00:00:00

  • Evolution of lipidic structures during model membrane fusion and the relation of this process to cell membrane fusion.

    abstract::The sequence of events involved in poly(ethylene glycol)-mediated fusion of small unilamellar vesicles (SUVs) has been studied. Fusion events were monitored using light scattering for vesicle aggregation, the fluorescence lifetime of membrane probe lipids (DPHpPC and NBD-PS) for membrane mixing, the aqueous fluorescen...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi970404c

    authors: Lee J,Lentz BR

    更新日期:1997-05-27 00:00:00

  • A distinctive RNA fold: the solution structure of an analogue of the yeast tRNAPhe T Psi C domain.

    abstract::The structure of an analogue of the yeast tRNAPhe T Psi C stem-loop has been determined by NMR spectroscopy and restrained molecular dynamics. The molecule contained the highly conserved modification ribothymidine at its naturally occurring position. The ribothymidine-modified T Psi C stem-loop is the product of the m...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi990118w

    authors: Koshlap KM,Guenther R,Sochacka E,Malkiewicz A,Agris PF

    更新日期:1999-07-06 00:00:00

  • Purification, characterization, and substrate and inhibitor structure-activity studies of rat liver FAD-AMP lyase (cyclizing): preference for FAD and specificity for splitting ribonucleoside diphosphate-X into ribonucleotide and a five-atom cyclic phospho

    abstract::An enzyme with FAD-AMP lyase (cyclizing) activity, splitting FAD to AMP and riboflavin 4',5'-phosphate (cFMN), was recently identified [Fraiz, F., et al. (1998) Biochem. J. 330, 881-888]. Now, it has been purified to apparent homogeneity from a rat liver supernatant, by a procedure that includes affinity for ADP-agaro...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0157159

    authors: Cabezas A,Pinto RM,Fraiz F,Canales J,González-Santiago S,Cameselle JC

    更新日期:2001-11-13 00:00:00

  • Variable-temperature spectroelectrochemical study of horseradish peroxidase.

    abstract::The reduction potentials of the compound II/ferric and compound I/compound II couples have been studied, using potassium hexachloroiridate as a mediator titrant, by thin-layer spectroelectrochemistry. Compound I, which is 2 equiv more oxidized than the ferric (i.e., resting) form of the enzyme, was reversibly formed v...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00009a017

    authors: Farhangrazi ZS,Fossett ME,Powers LS,Ellis WR Jr

    更新日期:1995-03-07 00:00:00

  • Steric constraints in the retinal binding pocket of sensory rhodopsin I.

    abstract::Steric constraints in the retinal binding pocket of sensory rhodopsin I (SR-I) are analyzed by studying effects of sample temperature and retinal analogs. The flash-induced yield of the earliest detected intermediate S610, which corresponds to the K intermediate in the bacteriorhodopsin (BR) photocycle, decreases belo...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00089a044

    authors: Yan B,Xie A,Nienhaus GU,Katsuta Y,Spudich JL

    更新日期:1993-09-28 00:00:00

  • Kinetic mechanism of DNA polymerase I (Klenow fragment): identification of a second conformational change and evaluation of the internal equilibrium constant.

    abstract::In a previously determined minimal kinetic scheme for DNA polymerization catalyzed by the Klenow fragment (KF) of Escherichia coli DNA polymerase I, a nonchemical step that interconverted the KF'.DNAn+1.PPi and KF.DNAn+1PPi complexes was not observed in correct incorporation [Kuchta, R. D., Mizrahi, V., Benkovic, P.A....

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00234a002

    authors: Dahlberg ME,Benkovic SJ

    更新日期:1991-05-21 00:00:00

  • Identification of Cys139 and Glu207 as catalytically important groups in the active site of isopentenyl diphosphate:dimethylallyl diphosphate isomerase.

    abstract::Isopentenyl diphosphate:dimethylallyl diphosphate isomerase (EC 5.3.3.2) catalyzes the antarafacial [1.3] allylic rearrangement of isopentenyl diphosphate (IPP) to its electrophilic allylic isomer dimethylallyl diphosphate (DMAPP). Active-site thiols at C138 and C139 were recently identified by covalent modification u...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00180a014

    authors: Street IP,Coffman HR,Baker JA,Poulter CD

    更新日期:1994-04-12 00:00:00

  • Different structural and kinetic requirements for the interaction of Ran with the Ran-binding domains from RanBP2 and importin-beta.

    abstract::The cytoplasmic disassembly of Ran.GTP.importin and Ran.GTP.exportin. cargo complexes is an essential step in the corresponding nuclear import and export cycles. It has previously been shown that such disassembly can be mediated by RanBP1 in the presence of RanGAP. The nuclear pore complex protein RanBP2 (Nup358) cont...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi001010f

    authors: Villa Braslavsky CI,Nowak C,Görlich D,Wittinghofer A,Kuhlmann J

    更新日期:2000-09-26 00:00:00

  • Thermodynamics of reversible and irreversible unfolding and domain interactions of glucoamylase from Aspergillus niger studied by differential scanning and isothermal titration calorimetry.

    abstract::The stability of three forms of glucoamylase from Aspergillus niger has been investigated by differential scanning and isothermal titration calorimetry: Glucoamylase 1 (GA1), which consists of a catalytic domain and a starch-binding domain (SBD) connected by a heavily O-glycosylated linker region; glucoamylase 2 (GA2)...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi990185q

    authors: Christensen T,Svensson B,Sigurskjold BW

    更新日期:1999-05-11 00:00:00

  • Sequence-specific covalent modification of DNA by cross-linking oligonucleotides. Catalysis by RecA and implication for the mechanism of synaptic joint formation.

    abstract::Oligodeoxynucleotides (ODNs) were conjugated to chlorambucil and used as affinity labeling reagents to study joint molecule formation by the Escherichia coli recombinase recA. Chlorambucil is a bifunctional nitrogen mustard which alkylates the N-7 position of guanine in the major groove of double-stranded DNA (dsDNA)....

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00040a022

    authors: Podyminogin MA,Meyer RB,Gamper HB

    更新日期:1995-10-10 00:00:00

  • Molecular structure of rat brain apamin receptor: differential photoaffinity labeling of putative K+ channel subunits and target size analysis.

    abstract::Two photoreactive apamin derivatives were prepared with an aryl azide [[(azidonitrophenyl)amino]acetate (ANPAA)] group coupled at different positions on the neurotoxin molecule. These ligands were used to identify membrane components in the environment of the neuronal binding site that is associated with a Ca2+-activa...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00362a010

    authors: Seagar MJ,Labbé-Jullié C,Granier C,Goll A,Glossmann H,Van Rietschoten J,Couraud F

    更新日期:1986-07-15 00:00:00

  • Organization of the human protein S genes.

    abstract::Human genomic clones that span the entire protein S expressed gene (PS alpha) and the 3' two-thirds of the protein S pseudogene (PS beta) have been isolated and characterized. The PS alpha gene is greater than 80 kilobases in length and contains 14 introns and 15 exons, as well as 6 repetitive "Alu" sequences. Exons I...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00486a010

    authors: Schmidel DK,Tatro AV,Phelps LG,Tomczak JA,Long GL

    更新日期:1990-08-28 00:00:00

  • Primary quinone (QA) binding site of bacterial photosynthetic reaction centers: mutations at residue M265 probed by FTIR spectroscopy.

    abstract::In the primary quinone (Q(A)) binding site of Rb. sphaeroides reaction centers (RCs), isoleucine M265 is in extensive van der Waals contact with the ubiquinone headgroup. Substitution of threonine or serine for this residue (mutants M265IT and M265IS), but not valine (mutant M265IV), lowers the redox midpoint potentia...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi026958j

    authors: Wells TA,Takahashi E,Wraight CA

    更新日期:2003-04-15 00:00:00

  • A designed protein with packing between left-handed and right-handed helices.

    abstract::A common motif in protein structures is the assembly of alpha-helices. Natural alpha-helical assemblies, such as helical bundles and coiled coils, consist of multiple right-handed alpha-helices. Here we design a protein complex containing both left-handed and right-handed helices, with peptides of D- and L-amino acids...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi010725v

    authors: Sia SK,Kim PS

    更新日期:2001-07-31 00:00:00

  • Sulfide binding properties of truncated hemoglobins.

    abstract::The truncated hemoglobins from Bacillus subtilis (Bs-trHb) and Thermobifida fusca (Tf-trHb) have been shown to form high-affinity complexes with hydrogen sulfide in their ferric state. The recombinant proteins, as extracted from Escherichia coli cells after overexpression, are indeed partially saturated with sulfide, ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi901671d

    authors: Nicoletti FP,Comandini A,Bonamore A,Boechi L,Boubeta FM,Feis A,Smulevich G,Boffi A

    更新日期:2010-03-16 00:00:00

  • Spectroscopic Identification of Peptide Chemistry in the Caulobacter crescentus Holdfast.

    abstract::The bacterium Caulobacter crescentus is known to attach irreversibly to underwater surfaces by utilizing an adhesive structure called the holdfast, which exhibits the greatest known adhesive strength of any organism. The very small size of the holdfast (∼400 nm wide and ∼40 nm high) has made direct chemical analysis d...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.0c00625

    authors: Nyarko A,Singla S,Barton HA,Dhinojwala A

    更新日期:2020-09-22 00:00:00

  • Thermal stability of calmodulin and mutants studied by (1)H-(15)N HSQC NMR measurements of selectively labeled [(15)N]Ile proteins.

    abstract::Calmodulin, the Ca(2+)-dependent activator of many cellular processes, contains two well-defined structural domains, each of which binds two Ca(2+) ions. In its Ca(2+)-free (apo) form, it provides an attractive model for studying mechanisms of protein unfolding, exhibiting two separable, reversible processes, indicati...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi012187s

    authors: Biekofsky RR,Martin SR,McCormick JE,Masino L,Fefeu S,Bayley PM,Feeney J

    更新日期:2002-05-28 00:00:00