Role of aspartate 143 in Escherichia coli tRNA-guanine transglycosylase: alteration of heterocyclic substrate specificity.

Abstract:

:tRNA-guanine transglycosylase (TGT) is a key enzyme involved in the post-transcriptional modification of certain tRNAs in their anticodon wobble positions with queuine. To maintain the correct Watson-Crick base pairing properties of the wobble base (and hence proper translation of the genetic code), TGT must recognize its heterocyclic substrate with high specificity. The X-ray crystal structure of a eubacterial TGT bound to preQ1 [Romier, C., et al. (1996) EMBO J. 15, 2850-2857] suggested that aspartate 143 (Escherichia coli TGT numbering) was involved in heterocyclic substrate recognition. Subsequent mutagenic and computational modeling studies from our lab [Todorov, K. A., et al. (2005) Biophys. J. 89 (3), 1965-1977] provided experimental evidence supporting this hypothesis. Herein, we report further studies probing the differential heterocyclic substrate recognition properties of the aspartate 143 mutant TGTs. Our results are consistent with one of the mutants exhibiting an inversion of substrate recognition preference (xanthine vs guanine) relative to that of the wild type, as evidenced by Km values. This confirms the key role of aspartate 143 in maintaining the anticodon identities of the queuine-containing tRNAs and suggests that TGT mutants could be developed that would alter the tRNA wobble base base pairing properties.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Todorov KA,Garcia GA

doi

10.1021/bi051863d

subject

Has Abstract

pub_date

2006-01-17 00:00:00

pages

617-25

issue

2

eissn

0006-2960

issn

1520-4995

journal_volume

45

pub_type

杂志文章
  • Correlation of photolabeling with occupancy of cAMP binding sites in the regulatory subunit of cAMP-dependent protein kinase I.

    abstract::Each regulatory subunit of the cAMP-dependent protein kinase contains two in-tandem cAMP binding sites. Photolabeling of holoenzyme I with 8-azidoadenosine 3',5'-monophosphate (8-N3-cAMP) leads to the covalent modification of two residues, Trp-260 and Tyr-371. In order to correlate photolabeling of these two residues ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00386a035

    authors: Bubis J,Taylor SS

    更新日期:1987-06-16 00:00:00

  • A Simple Colorimetric System for Detecting Target Antigens by a Three-Stage Signal Transformation-Amplification Strategy.

    abstract::Inexpensive, straightforward, and rapid medical diagnostics are becoming increasingly important for disease identification in time- and resource-limited settings. Previous attempts to link oligonucleotide-based aptamers and hammerhead ribozymes to form ligand-induced ribozymes have been successful in identifying a var...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.8b00523

    authors: Liao AM,Pan W,Benson JC,Wong AD,Rose BJ,Caltagirone GT

    更新日期:2018-08-28 00:00:00

  • Control of the redox potential of cytochrome c and microscopic dielectric effects in proteins.

    abstract::X-ray structural information provides the opportunity to explore quantitatively the relation between the microenvironments of heme proteins and their redox potentials. This can be done by considering the protein as a "solvent" for its redox center and calculating the difference between the electrostatic energy of the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00355a035

    authors: Churg AK,Warshel A

    更新日期:1986-04-08 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

  • Attenuated total reflection Fourier transform infrared studies of redox changes in bovine cytochrome c oxidase: resolution of the redox Fourier transform infrared difference spectrum of heme a(3).

    abstract::Attenuated total reflection Fourier transform infrared (ATR-FTIR) difference spectroscopy has been performed on samples of bovine cytochrome c oxidase that have been deposited as a thin film on the surface of a silicon microprism. The technique has several advantages over transmission methods in terms of amount of mat...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0109717

    authors: Rich PR,Breton J

    更新日期:2002-01-22 00:00:00

  • Kinetic behavior of porcine pancreatic phospholipase A2 on zwitterionic and negatively charged double-chain substrates.

    abstract::A number of isomeric diacylglycerophosphocholines and diacylglycero sulfates containing O-acyl and/or S-acyl ester bonds were investigated as substrates for porcine pancreatic phospholipase A2 and its zymogen. A comparison is made with the kinetic properties of the enzyme toward the corresponding glycol detergents pre...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00348a023

    authors: van Oort MG,Dijkman R,Hille JD,de Haas GH

    更新日期:1985-12-31 00:00:00

  • Effect of the disulfide bridge and the C-terminal extension on the oligomerization of the amyloid peptide ABri implicated in familial British dementia.

    abstract::Familial British dementia (FBD) is a rare neurodegenerative disorder and shares features with Alzheimer's disease, including amyloid plaque deposits, neurofibrillary tangles, neuronal loss, and progressive dementia. Immunohistochemical and biochemical analysis of plaques and vascular amyloid of FBD brains revealed tha...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi002287i

    authors: El-Agnaf OM,Sheridan JM,Sidera C,Siligardi G,Hussain R,Haris PI,Austen BM

    更新日期:2001-03-27 00:00:00

  • Extreme Dynamics in the BamA β-Barrel Seam.

    abstract::BamA is an essential component of the β-barrel assembly machine (BAM) that is responsible for insertion and folding of β-barrel outer membrane proteins (OMPs) in Gram-negative bacteria. BamA is an OMP itself, and its β-barrel transmembrane domain is thought to catalyze OMP insertion and folding, although the molecular...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.7b00281

    authors: Doerner PA,Sousa MC

    更新日期:2017-06-20 00:00:00

  • Kinetic and thermodynamic studies of tet repressor-tetracycline interaction.

    abstract::Stopped-flow measurements have been employed to study the kinetics of the conformational changes in TetR (B) induced by tetracycline binding with and without Mg(2+) ions. Result of stopped-flow fluorometry measurements at pH 8.0 indicate conformational changes in the helix-turn-helix motif in the N-terminal domain and...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi048548w

    authors: Kedracka-Krok S,Gorecki A,Bonarek P,Wasylewski Z

    更新日期:2005-01-25 00:00:00

  • Identification from a phage display library of peptides that bind to toxic shock syndrome toxin-1 and that inhibit its binding to major histocompatibility complex (MHC) class II molecules.

    abstract::Phage display technique is a powerful tool with which to identify novel binding sequences for antibody and receptor targets. Few studies, however, have used this technology to select affinity peptides for ligand molecules. Here, we screened a peptide phage library for binding to toxic shock syndrome toxin 1 (TSST-1) t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi960132y

    authors: Sato A,Ida N,Fukuyama M,Miwa K,Kazami J,Nakamura H

    更新日期:1996-08-13 00:00:00

  • Atherogenic hyperlipoproteinemia induced by cholesterol feeding the Patas monkey.

    abstract::Patas monkeys were studied for 2 years on three dietary regimes: (1) commercial chow (control diet); (2) semipurified diet plus lard (fat-fed); and (3) semipurified diet plus lard and cholesterol (cholesterol-fed). The control and fat-fed animals had similar lipoproteins which were equivalent to the human very low den...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00659a007

    authors: Mahley RW,Weisgraber KH,Innerarity T

    更新日期:1976-07-13 00:00:00

  • Identification by proton nuclear magnetic resonance of the histidines in cytochrome b5 modified by diethyl pyrocarbonate.

    abstract::Diethyl pyrocarbonate (DEP) is an electrophilic reagent that is used to modify reversibly the histidine residues of proteins. Unfortunately, the lability of the acylated histidine adduct usually does not permit the isolation and identification of the modified histidine. By use of 500-MHz proton NMR spectroscopy, it ha...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00445a004

    authors: Altman J,Lipka JJ,Kuntz I,Waskell L

    更新日期:1989-09-19 00:00:00

  • A hydrophobic inhibitor of the nicotinic acetylcholine receptor acts on the resting state.

    abstract::3-(Trifluoromethyl)-3-(m-iodophenyl)diazirine (TID) has recently been found to be a noncompetitive inhibitor of the nicotinic acetylcholine receptor (nAcChoR) by both photolabeling and flux assays (White et al., 1991). However, these experiments were done when TID was in equilibrium with the nAcChoR, and thus only its...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00255a018

    authors: Wu G,Raines DE,Miller KW

    更新日期:1994-12-27 00:00:00

  • Calorimetric studies on the interaction of horse ferricytochrome c and yeast cytochrome c peroxidase.

    abstract::The binding of horse ferricytochrome c to yeast cytochrome c peroxidase at pH 6.0 in 8.7 mM phosphate buffer (0.0100 M ionic strength) is characterized by a small, unfavorable enthalpy change (+1.91 +/- 0.16 kcal mol-1) and a large, positive entropy change (+37 +/- 1 eu). The free energy of binding depends strongly up...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00026a022

    authors: Kresheck GC,Vitello LB,Erman JE

    更新日期:1995-07-04 00:00:00

  • Molecular mechanism of spectral tuning in sensory rhodopsin II.

    abstract::Sensory rhodopsin II (SRII) is unique among the archaeal rhodopsins in having an absorption maximum near 500 nm, blue shifted roughly 70 nm from the other pigments. In addition, SRII displays vibronic structure in the lambda(max) absorption band, whereas the other pigments display fully broadened band maxima. The mole...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0116487

    authors: Ren L,Martin CH,Wise KJ,Gillespie NB,Luecke H,Lanyi JK,Spudich JL,Birge RR

    更新日期:2001-11-20 00:00:00

  • Characterization of the nuclease activity of Drosophila Rrp1 on phosphoglycolate- and phosphate-modified DNA 3'-termini.

    abstract::Drosophila Rrp1 includes a carboxy-terminal region homologous to Escherichia coli exonuclease III which is sufficient to repair both oxidative and alkylation damage to DNA. An apurinic/apyrimidinic endonuclease activity intrinsic to Rrp1 was characterized previously. In this work, the 3'-phosphodiesterase and 3'-phosp...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00004a021

    authors: Sander M,Huang SM

    更新日期:1995-01-31 00:00:00

  • Differential induction of pS2 and cathepsin D mRNAs by structurally altered estrogens.

    abstract::The influence of structural alterations to the estradiol-17 beta (E2) molecule on the induction of pS2 and Cathepsin D (Cath D) mRNAs has been examined by Northern analysis of RNA extracted from MCF-7 cells. Exposure of cultures to estratriene did not affect the level of expression of these estrogen-responsive genes. ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00078a028

    authors: Pilat MJ,Hafner MS,Kral LG,Brooks SC

    更新日期:1993-07-13 00:00:00

  • Competing Protonation and Halide Elimination as a Probe of the Character of Thiamin-Derived Reactive Intermediates.

    abstract::Decarboxylation reactions from comparable thiamin diphosphate- and thiamin-derived adducts of p-(halomethyl)benzoylformic acids in enzymic and non-enzymic reactions, respectively, reveal critical distinctions in otherwise similar Breslow intermediates. The ratio of protonation to chloride elimination from the Breslow ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.9b00298

    authors: Bielecki M,Howe GW,Kluger R

    更新日期:2019-08-27 00:00:00

  • Communication between the active sites in dimeric mercuric ion reductase: an alternating sites hypothesis for catalysis.

    abstract::Mercuric reductase, a flavoprotein disulfide oxidoreductase, catalyzes the two-electron reduction of Hg(II) to Hg(0) by NADPH. As with all the members of this class of proteins, the enzyme is a dimer of identical subunits with two active sites per dimer, each composed of one FAD and catalytically essential residues fr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00224a006

    authors: Miller SM,Massey V,Williams CH Jr,Ballou DP,Walsh CT

    更新日期:1991-03-12 00:00:00

  • The red blood cell glucose transporter presents multiple, nucleotide-sensitive sugar exit sites.

    abstract::At any instant, the human erythrocyte sugar transporter presents at least one sugar export site but multiple sugar import sites. The present study asks whether the transporter also presents more than one sugar exit site. We approached this question by analysis of binding of [3H]cytochalasin B (an export conformer liga...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi015586w

    authors: Cloherty EK,Levine KB,Carruthers A

    更新日期:2001-12-25 00:00:00

  • Structure of the ternary complex formed by a chemotaxis receptor signaling domain, the CheA histidine kinase, and the coupling protein CheW as determined by pulsed dipolar ESR spectroscopy.

    abstract::The signaling apparatus that controls bacterial chemotaxis is composed of a core complex containing chemoreceptors, the histidine autokinase CheA, and the coupling protein CheW. Site-specific spin labeling and pulsed dipolar ESR spectroscopy (PDS) have been applied to investigate the structure of a soluble ternary com...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi100055m

    authors: Bhatnagar J,Borbat PP,Pollard AM,Bilwes AM,Freed JH,Crane BR

    更新日期:2010-05-11 00:00:00

  • Hydrogen-1 nuclear magnetic resonance study of the complexes of two diastereoisomers of folinic acid with dihydrofolate reductase.

    abstract::The 1H chemical shifts for the formyl and benzoyl protons of the individual diastereoisomeres of folinic acid bound to dihydrofolate reductase have been measured. For the tightly bound biologically active 6S, alpha S isomer, the "bound" signals were assigned by using transfer of saturation methods. In this case, only ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00510a019

    authors: Feeney J,Birdsall B,Albrand JP,Roberts GC,Burgen AS,Charlton PA,Young DW

    更新日期:1981-03-31 00:00:00

  • Quantification of cysteinyl S-nitrosylation by fluorescence in unbiased proteomic studies.

    abstract::Cysteinyl S-nitrosylation has emerged as an important post-translational modification affecting protein function in health and disease. Great emphasis has been placed on global, unbiased quantification of S-nitrosylated proteins because of physiologic and oxidative stimuli. However, current strategies have been hamper...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi200008b

    authors: Wiktorowicz JE,Stafford S,Rea H,Urvil P,Soman K,Kurosky A,Perez-Polo JR,Savidge TC

    更新日期:2011-06-28 00:00:00

  • Use of aryl azide cross-linkers to investigate protein-protein interactions: an optimization of important conditions as applied to Escherichia coli RNA polymerase and localization of a sigma 70-alpha cross-link to the C-terminal region of alpha.

    abstract::In an effort to better understand protein-protein photoaffinity cross-linking using aryl azides, we have tested a number of factors influencing the cross-linking of the sigma 70 subunit of Escherichia coli RNA polymerase to core RNA polymerase. These factors include the effect of the incubations necessary for the deri...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00206a012

    authors: McMahan SA,Burgess RR

    更新日期:1994-10-11 00:00:00

  • The structural basis for pseudoreversion of the E165D lesion by the secondary S96P mutation in triosephosphate isomerase depends on the positions of active site water molecules.

    abstract::The structural basis for the improvement in catalytic efficiency of the mutant E165D chicken triosephosphate isomerase by the secondary mutation, S96P, has been analyzed using a combination of X-ray crystallography and Fourier transform infrared spectroscopy. All X-ray structures were of the complex of phosphoglycoloh...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00041a041

    authors: Komives EA,Lougheed JC,Liu K,Sugio S,Zhang Z,Petsko GA,Ringe D

    更新日期:1995-10-17 00:00:00

  • Iron regulatory element and internal loop/bulge structure for ferritin mRNA studied by cobalt(III) hexammine binding, molecular modeling, and NMR spectroscopy.

    abstract::The ferritin IRE, a highly conserved (96-99% in vertebrates) mRNA translation regulatory element in animal mRNA, was studied by molecular modeling (using MC-SYM and DOCKING) and by NMR spectroscopy. Cobalt(III) hexammine was used to model hydrated Mg2+. IRE isoforms in other mRNAs regulate mRNA translation or stabilit...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9719814

    authors: Gdaniec Z,Sierzputowska-Gracz H,Theil EC

    更新日期:1998-02-10 00:00:00

  • An in vitro peptide complementation assay for CYT-18-dependent group I intron splicing reveals a new role for the N-terminus.

    abstract::The mitochondrial tyrosyl tRNA synthetase from Neurospora crassa (CYT-18 protein) is a bifunctional group I intron splicing cofactor. CYT-18 is capable of splicing multiple group I introns from a wide variety of sources by stabilizing the catalytically active intron structures. CYT-18 and mt TyrRSs from related fungal...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi401614h

    authors: Geng C,Paukstelis PJ

    更新日期:2014-03-04 00:00:00

  • beta-Lactamase proceeds via an acyl-enzyme intermediate. Interaction of the Escherichia coli RTEM enzyme with cefoxitin.

    abstract::The use of cefoxitin, a poor substrate of the RTEM beta-lactamase, has allowed the kinetic and spectroscopic characterization of a covalent acyl-enzyme intermediate in the enzyme-catalyzed reaction. The rate of reappearance of catalytic activity in an enzyme sample diluted from an incubation with cefoxitin is nearly i...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00554a012

    authors: Fisher J,Belasco JG,Khosla S,Knowles JR

    更新日期:1980-06-24 00:00:00

  • Influence of temperature on the conformation of canine plasminogen: an analytical ultracentrifugation and dynamic light scattering study.

    abstract::Plasminogen is known to undergo an extremely large conformational change when it binds ligands; the two well-established conformations are either closed (absence of external ligand) or open (presence of external ligand). We show here that plasminogen is more complicated than can be accommodated by a two-state, closed/...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi050895y

    authors: Kornblatt JA,Schuck P

    更新日期:2005-10-04 00:00:00

  • Dehydroquinate synthase: the use of substrate analogues to probe the early steps of the catalyzed reaction.

    abstract::The early steps of the proposed mechanistic pathway for dehydroquinate synthase have been probed with a series of substrate analogues. These analogues, 3-9, are structurally prohibited from undergoing the beta-elimination of inorganic phosphate that represents the committed step in the conversion of the substrate 3-de...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00445a010

    authors: Bender SL,Widlanski T,Knowles JR

    更新日期:1989-09-19 00:00:00