Abstract：
:NMR spectroscopy has been used to study the interaction of aminoglycoside antibiotics with an aminoglycoside antibiotic 3'-phosphotransferase [APH(3')-IIIa]. APH(3')-IIIa is an enterococcal enzyme that is responsible for the ATP-dependent O-phosphorylation of a broad range of aminoglycoside antibiotics. The NMR method of transferred nuclear Overhauser effect spectroscopy (TRNOESY) was used to detect intra- and inter-ring NOEs for butirosin A and amikacin in their respective ternary complexes with APH(3')-IIIa and ATP. NOE-derived distance constraints were used in energy minimization and dynamics routines to yield enzyme-bound structures for butirosin A. These structures suggest that the 2,6-diamino-2,6-dideoxy-D-glucose and D-xylose rings have restricted motions and are in a stacking arrangement. The TRNOE spectra for amikacin suggest that the 6-amino-6-deoxy-D-glucose ring is flexible when the antibiotic is bound to APH(3')-IIIa. The 15N resonances of butirosin A were assigned and the pKa values of the amino groups of butirosin A and amikacin were determined by 15N NMR spectroscopy. The N3 amino groups of butirosin A and amikacin have lowered pKa values, which is attributed to the (S)-4-amino-2-hydroxybutyryl (AHB) group of the antibiotics. This work provides an insight into the geometrical and electrostatic nature of aminoglycoside antibiotics bound to a modifying enzyme and will provide a basis for the design of inhibitors of APH(3')-IIIa.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Cox JR,Serpersu EHdoi
10.1021/bi9626822subject
Has Abstractpub_date
1997-03-04 00:00:00pages
2353-9issue
9eissn
0006-2960issn
1520-4995pii
bi9626822journal_volume
36pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:Photolyases reverse the effects of UV light on cells by converting cyclobutane dipyrimidine photoproducts (pyrimidine dimers, Pyr mean value of Pyr) into pyrimidine monomers in a light-dependent reaction. Previous work has suggested that, based on substrate preference, there are two classes of photolyase: DNA photolya...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00099a019
更新日期：1991-09-03 00:00:00
abstract：:An endo-beta-galactosidase, which hydrolyzes the internal beta-galactosidic linkages of R----GlcNAc (or GalNAc) beta 1----3Gal beta 1----4GlcNAc (or Glc), was isolated from the culture supernatant of Diplococcus pneumoniae. The enzyme, named endo-beta-galactosidase DII, hydrolyzed linear N-acetyllactosamine repeating ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00330a008
更新日期：1985-04-23 00:00:00
abstract：:The thermodynamics of the native<-->A state and native<-->unfolded transitions for ubiquitin have been characterized in detail using the denaturants methanol and guanidinium chloride (Gdn.HCl) both separately and in combination. Gdn.HCl destabilizes the partially folded alcohol-induced A state such that the effects of...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi010767j
更新日期：2001-08-28 00:00:00
abstract：:We report a straightforward enzymatic synthesis of the 4-methylumbelliferyl glycoside of a complex-type oligosaccharide substrate for core fucosylation. We demonstrate the use of this synthetic glycoconjugate in a newly developed enzyme assay to probe the activity and inhibition of fucosyltransferase VIII, which catal...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.0c00286
更新日期：2020-06-09 00:00:00
abstract：:Calmodulin (CaM), by mediating the stimulation of the activity of two adenylyl cyclases (ACs), plays a key role in integrating the cAMP and Ca(2+) signaling systems. These ACs, AC1 and AC8, by decoding discrete Ca(2+) signals can contribute to fine-tuning intracellular cAMP dynamics, particularly in neurons where they...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi300646y
更新日期：2012-10-09 00:00:00
abstract：:Treatment of murine leukemia virus reverse transcriptase (MuLV RT) with potassium ferrate, an oxidizing agent known to oxidize amino acids involved in phosphate binding domains of proteins, results in the irreversible inactivation of both the DNA polymerase and the RNase H activities. Significant protection from ferra...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00247a015
更新日期：1991-08-20 00:00:00
abstract：:Understanding the molecular mechanisms of enzyme catalysis and allosteric regulation has been a primary goal of biochemistry for many years. The dynamics of these processes, approached through a variety of kinetic methods, are discussed. The results obtained for many different enzymes suggest that multiple intermediat...
journal_title：Biochemistry
pub_type： 杂志文章,评审
doi：10.1021/bi0260839
更新日期：2002-07-02 00:00:00
abstract：:Carboxyl ester lipase (CEL; EC 3.1.1.13) hydrolyzes cholesteryl esters and retinyl esters in vitro. In vivo, pancreatic CEL is thought to liberate cholesterol and retinol from their esters prior to absorption in the intestine. CEL is also a major lipase in the breast milk of many mammals, including humans and mice, an...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi981679a
更新日期：1999-03-30 00:00:00
abstract：:MerR, the metalloregulator of the mercury resistance (mer) operon, binds the operator (merO)between -10 and -35 of the merTPCAD promoter (PT) and sequesters RNA polymerase (RNAP) in a closed complex. MerR represses PT until Hg(II) induces it to underwind merO DNA and thus facilitate open complex formation. We used cro...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi982814m
更新日期：1999-03-16 00:00:00
abstract：:We have investigated the action of the human DNA polymerase ε (hpol ε) and η (hpol η) catalytic cores on G-quadruplex (G4) DNA substrates derived from the promoter of the c-MYC proto-oncogene. The translesion enzyme hpol η exhibits a 6.2-fold preference for binding to G4 DNA over non-G4 DNA, while hpol ε binds both G4...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.5b00060
更新日期：2015-05-26 00:00:00
abstract：:The clam Scapharca inaequivalvis possesses two cooperative oxygen binding hemoglobins in its red cells: a homodimeric HbI and a heterotetrameric A2B2 HbII. Each AB dimeric half of HbII is assembled in a manner very similar to that of the well-studied HbI. This study presents crystal structures of HbII along with oxyge...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi301620x
更新日期：2013-03-26 00:00:00
abstract：:The chemical mechanism of the phosphoribosyltransferases (PRTases), although largely unknown, may proceed either via a concerted direct-transfer mechanism or with a two-step mechanism involving a carboxonium-like intermediate. To study this question, we have cloned the Salmonella typhimurium pyrE gene, coding for the ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00498a009
更新日期：1990-11-20 00:00:00
abstract：:The flap endonuclease, FEN1, plays a critical role in DNA replication and repair. Human FEN1 exhibits both a 5' to 3' exonucleolytic and a structure-specific endonucleolytic activity. On primer-template substrates containing an unannealed 5'-tail, or flap structure, FEN1 employs a unique mechanism to cleave at the poi...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi991321u
更新日期：1999-10-05 00:00:00
abstract：:Rabbit aortic smooth muscle cells were evaluated for their ability to synthesize and accumulate glycosaminoglycans (GAGs). Because of the sensitivity of the microtechniques utilized, it is possible to determine the specific radioactivity of the GAGs obtained after radioactive incorporation of [35S]SO4(2-) and [14C]glu...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00550a026
更新日期：1980-04-29 00:00:00
abstract：:The DNA of Novikoff hepatoma ascites cells was found to contain a 3.6-megadalton EcoRI restriction fragment, referred to as EcoRI fragment A (Parker et al., 1979). C0t analyses demonstrated an enrichment of fragment A sequences in Novikoff hepatoma genome relative to normal rat liver DNA. This fragment was cloned in l...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00507a017
更新日期：1981-02-17 00:00:00
abstract：:Phosphatidylinositol-specific phospholipase C (PLC) enzymes catalyze the hydrolysis of phosphatidylinositol 4,5 bisphosphate in a two step reaction that involves a cyclic intermediate. The PLCbetafamily are activated by both the alpha and betagamma subunits of heterotrimeric G proteins. To determine which catalytic st...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0482607
更新日期：2005-02-22 00:00:00
abstract：:The relationship between the domain structure of the alpha subunit of Escherichia coli tryptophan synthase and the mechanism of unfolding of the alpha subunit is investigated. Previous studies of the unfolding of the alpha subunit by increasing concentrations of guanidine hydrochloride or urea detected a partially unf...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00540a002
更新日期：1982-05-25 00:00:00
abstract：:Multiple intracellular receptors of the FK506 binding protein (FKBP) family of peptidylprolyl cis/trans-isomerases are potential targets for the immunosuppressive drug FK506. Inhibition of the protein phosphatase calcineurin (CaN), which has been implicated in the FK506-mediated blockade of T cell proliferation, was s...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi061616p
更新日期：2006-12-26 00:00:00
abstract：:Cardiac troponin T (cTnT) is a myofibrillar protein essential for calcium-dependent contraction. This property has led to functional studies of developmentally expressed cTnT isoforms and mutants identified in patients with hypertrophic cardiomyopathy. The release of cTnT into the serum following myocardial infarction...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi7012596
更新日期：2008-02-19 00:00:00
abstract：:Ca2+ release from heavy sarcoplasmic reticulum (SR) vesicles was induced by 2 mM caffeine, and the amount (A) and the rate constant (k) of Ca2+ release were investigated as a function of the extent of Ca2+ loading. Under both passive and active loading conditions, the A value increased monotonically in parallel to Ca2...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00442a033
更新日期：1989-08-08 00:00:00
abstract：:In the ras gene superfamily, codon 12 (-TGGTG-) of the K-ras gene is the most frequently mutated codon in human cancers. Recently, we have found that bulky chemical carcinogens preferentially form DNA adducts at codons 12 and 14 (-CGTAG-) in the K-ras gene in normal human bronchial epithelial (NHBE) cells. Furthermore...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi034631s
更新日期：2003-08-26 00:00:00
abstract：:Phosphoenolthiopyruvate, the analogue of phosphoenolpyruvate in which the bridging oxygen of the phosphate ester is replaced by sulfur, has been synthesized from methyl acrylate and dimethyl (chlorothio)phosphonate. The compound is a substrate for alkaline phosphatase, pyruvate kinase, enolase, and phosphoenolpyruvate...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00404a038
更新日期：1988-02-23 00:00:00
abstract：:FixL is a sensor histidine kinase having a heme-containing domain as an O(2) sensing site. In the study presented here, Ile209 and Ile210 located near the heme iron of the heme domain of Rhizobium meliloti FixL (RmFixL) were mutated, and the mutational effects on the regulation of the kinase activity and the heme pock...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi001184x
更新日期：2000-11-14 00:00:00
abstract：:AppA, a transcriptional antirepressor, regulates the steady expression of photosynthesis genes in Rhodobacter sphaeroides in response to high-intensity blue light and to redox signals. Its blue-light sensing is mediated by an N-terminal BLUF domain, a member of a novel flavin fold. The photocycle of this domain (AppA(...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi051367p
更新日期：2006-01-10 00:00:00
abstract：:The first use of computer-simulation studies to examine heparin's structure has been reported. The product distributions obtained when porcine mucosal heparins were depolymerized with heparinase have been compared to computer-simulated distributions. The modeled distribution was relatively unaffected by the polydisper...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00347a045
更新日期：1985-12-17 00:00:00
abstract：:The AT-rich interaction domain (ARID) containing BAF250a is a subunit of the BAF-A class of SWI/SNF chromatin remodeling complexes. The ARID belongs to a family of conserved DNA binding domains found in several eukaryotic proteins; however, its exact contribution to BAF250a function and the mechanism of its DNA bindin...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.9b00852
更新日期：2020-01-14 00:00:00
abstract：:Electron paramagnetic resonance (EPR) imaging utilizing stable nitroxyl radicals is a promising technique for measuring free radical distribution, metabolism, and tissue oxygenation in organs and tissues [Kuppusamy, P., Chzhan, M., Vij, K., Shteynbuk, M., Lefer, D. J., Giannella, E., & Zweier, J. L. (1994) Proc. Natl....
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi952857s
更新日期：1996-06-04 00:00:00
abstract：:The mechanism of N-methyltryptophan oxidase, a flavin-dependent amine oxidase from Escherichia coli, was studied using a combination of kinetic isotope effects and theoretical calculations. The 15(kcat/Km) kinetic isotope effect for sarcosine oxidation is pH-dependent with a limiting value of 0.994-0.995 at high pH. D...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi700482h
更新日期：2007-06-26 00:00:00
abstract：:Isothiouronium compounds [Hoving, S., Bar-Shimon, M., Tijmes, J. J., Goldshleger, R., Tal, D. M., and Karlish, S. J. (1995) J. Biol. Chem. 270, 29788-29793] act as high-affinity competitive antagonists for Na(+) and K(+) (Rb(+)) on the renal Na(+)/K(+)-ATPase where they favor the E1 conformation. We have now character...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi026071n
更新日期：2003-04-01 00:00:00
abstract：:Factor XIIIa (a2') is a homodimeric transglutaminase that is formed via limited alpha-thrombin-catalyzed proteolysis of the platelet (a2) or plasma (a2b2) factor XIII zymogen in a reaction that results in proteolytic removal of a 37-aminoacyl residue peptide from the N-terminus of the a chains and exposure of the acti...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00117a017
更新日期：1992-01-21 00:00:00
