Comparison of histidine recognition in human and trypanosomatid histidyl-tRNA synthetases.

Abstract:

:As part of a project aimed at obtaining selective inhibitors and drug-like compounds targeting tRNA synthetases from trypanosomatids, we have elucidated the crystal structure of human cytosolic histidyl-tRNA synthetase (Hs-cHisRS) in complex with histidine in order to be able to compare human and parasite enzymes. The resultant structure of Hs-cHisRS•His represents the substrate-bound state (H-state) of the enzyme. It provides an interesting opportunity to compare with ligand-free and imidazole-bound structures Hs-cHisRS published recently, both of which represent the ligand-free state (F-state) of the enzyme. The H-state Hs-cHisRS undergoes conformational changes in active site residues and several conserved motif of HisRS, compared to F-state structures. The histidine forms eight hydrogen bonds with HisRS of which six engage the amino and carboxylate groups of this amino acid. The availability of published imidazole-bound structure provides a unique opportunity to dissect the structural roles of individual chemical groups of histidine. The analysis revealed the importance of the amino and carboxylate groups, of the histidine in leading to these dramatic conformational changes of the H-state. Further, comparison with previously published trypanosomatid HisRS structures reveals a pocket in the F-state of the parasite enzyme that may provide opportunities for developing specific inhibitors of Trypanosoma brucei HisRS.

journal_name

Biochimie

journal_title

Biochimie

authors

Koh CY,Wetzel AB,de van der Schueren WJ,Hol WG

doi

10.1016/j.biochi.2014.08.005

subject

Has Abstract

pub_date

2014-11-01 00:00:00

pages

111-20

eissn

0300-9084

issn

1638-6183

pii

S0300-9084(14)00223-5

journal_volume

106

pub_type

杂志文章
  • Activation of the nuclear factor kappa B is not sufficient for regulation of tumor necrosis factor-induced interleukin-6 gene expression.

    abstract::After treatment of L929 cells, a murine fibrosarcoma line, with tumor necrosis factor (TNF), a nuclear kappa B-like transcription factor is rapidly induced as identified by gel shift mobility assays using the kappa B-responsive sequence of the immunoglobulin or interleukin-6 (IL-6) genes as a DNA probe. When induction...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/0300-9084(93)90153-j

    authors: Patestos NP,Haegeman G,Vandevoorde V,Fiers W

    更新日期:1993-01-01 00:00:00

  • An investigation into the ability of C-terminal homologues of Escherichia coli low molecular mass penicillin-binding proteins 4, 5 and 6 to undergo membrane interaction.

    abstract::The Escherichia coli low molecular mass penicillin-binding proteins (PBP4, PBP5 and PBP6) are a group of penicillin-sensitive enzymes involved in the final stages of cell wall assembly. It has been suggested that these proteins may interact with the periplasmic face of the inner membrane via C-terminal amphiphilic alp...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(97)83502-x

    authors: Harris F,Phoenix DA

    更新日期:1997-04-01 00:00:00

  • In vitro translation of human pheochromocytoma messenger RNAs: characterization of tyrosine-hydroxylase and dopamine-beta-hydroxylase.

    abstract::mRNAs extracted from human pheochromocytoma were translated in vitro in a lysate of a rabbit reticulocytes. Two enzymes of the biosynthetic pathway of the catecholamines, tyrosine-hydroxylase (TH) and dopamine-beta-hydroxylase (DBH), were characterized as translation products after immunoprecipitation by specific anti...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(85)80198-x

    authors: Benlot C,Antreassian J,Henry JP,Legrand JC,Gros F,Thibault J

    更新日期:1985-06-01 00:00:00

  • Hepatic glycerol metabolism is early reprogrammed in rat liver cancer development.

    abstract::Evidence shows that oral glycerol supplementation during the early stages of rat liver cancer reduces the growth of preneoplastic lesions. Besides, human hepatocellular carcinoma (HCC) cells display decreased expression of glycerol channel aquaporin 9 (AQP9) and also diminished glycerol-3-phosphate (G3P) content. Acco...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2020.01.002

    authors: Lorenzetti F,Capiglioni AM,Marinelli RA,Carrillo MC,Alvarez ML

    更新日期:2020-03-01 00:00:00

  • Synthesis and function of isopentenyl adenosine derivatives in tRNA.

    abstract::Isopentenyl adenosine derivatives can be found next to the anticodon (position 37) in tRNA from both the Bacteria and Eucarya domains. These modified nucleosides improve the efficiency of tRNA in translation, can increase and decrease translational fidelity, and make the tRNA less codon context sensitive. In bacteria ...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/0300-9084(94)90044-2

    authors: Persson BC,Esberg B,Olafsson O,Björk GR

    更新日期:1994-01-01 00:00:00

  • Regulation of translation and cell growth by eIF-4E.

    abstract::This review discusses the regulation of a key controlling step in the initiation of protein synthesis, the binding of mRNA to ribosomes. Particular focus is given to the phosphorylation of the cap-binding factor, eIF-4E, and the role of this factor in the regulation of cell growth. ...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/0300-9084(94)90185-6

    authors: Sonenberg N

    更新日期:1994-01-01 00:00:00

  • Metabolic impacts of altering meal frequency and timing - Does when we eat matter?

    abstract::Obesity prevalence continues to rise throughout the developed world, as a result of positive energy balance and reduced physical activity. At present, there is still a perception within the general community, and amongst some nutritionists, that eating multiple small meals spaced throughout the day is beneficial for w...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/j.biochi.2015.07.025

    authors: Hutchison AT,Heilbronn LK

    更新日期:2016-05-01 00:00:00

  • Glucosamine-P and rhodococcal ADP-glucose pyrophosphorylases: A hint to (re)discover (actino)bacterial amino sugar metabolism.

    abstract::Glycogen was described as a temporal storage molecule in rhodococci, interconnecting lipids and carbon availability. The Rhodococcus jostii ADP-glucose pyrophosphorylase (ADP-GlcPPase) kinetic and regulatory properties support this role. Curiously, the enzyme uses glucosamine-1P as alternative substrate. Herein, we re...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2020.07.006

    authors: Cereijo AE,Alvarez HM,Iglesias AA,Asencion Diez MD

    更新日期:2020-09-01 00:00:00

  • Overproduction of the membrane-bound components of the histidine permease from Salmonella typhimurium: identification of the M protein.

    abstract::The periplasmic histidine permease of Salmonella typhimurium is composed of a soluble histidine-binding protein and three membrane-bound components. These latter are produced in very small amounts and only two, the Q and the P protein, have been previously identified. This paper describes the construction of a plasmid...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(85)80242-x

    authors: Ames GF,Nikaido K,Hobson A,Malcolm B

    更新日期:1985-01-01 00:00:00

  • Is the secondary putative RNA-RNA interaction site relevant to GcvB mediated regulation of oppA mRNA in Escherichia coli?

    abstract::GcvB is a non-coding RNA that regulates oppA mRNA in different bacterial species by binding a GcvB GU-rich region named R1 to oppA mRNA. A secondary putative interaction site (PS1) was identified in this study that is able to form a second nearly perfect 10 base-pair duplex between these two RNAs in Escherichia coli. ...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2010.06.020

    authors: Busi F,Le Derout J,Cerciat M,Régnier P,Hajnsdorf E

    更新日期:2010-10-01 00:00:00

  • Conformational changes and activity alterations induced by nickel ion in horseradish peroxidase.

    abstract::Conformational changes induced by the binding of nickel to horseradish peroxidase C (HRPC) were studied by electronic absorption spectroscopy, fluorescence spectroscopy and circular dichroism spectroscopy. Incubation of HRPC with various concentrations of Ni(2+) for 5 minutes resulted in changes in the enzyme absorpti...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2006.04.001

    authors: Tayefi-Nasrabadi H,Keyhani E,Keyhani J

    更新日期:2006-09-01 00:00:00

  • Aminolytic reaction catalyzed by D-stereospecific amidohydrolases from Streptomyces spp.

    abstract::From investigation of 2000 soil isolates, we identified two serine-type amidohydrolases that can hydrolyze d-aminoacyl derivatives from the culture supernatant of Streptomyces species 82F2 and 83D12. The enzymes, redesignated as 82F2-DAP and 83D12-DAP, were purified for homogeneity and characterized. Each enzyme had m...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2011.04.020

    authors: Arima J,Ito H,Hatanaka T,Mori N

    更新日期:2011-09-01 00:00:00

  • Mutation of Thr445 and Ile500 of initiation factor 2 G-domain affects Escherichia coli growth rate at low temperature.

    abstract::The Escherichia coli protein synthesis initiation factor IF2 is a member of the large family of G-proteins. Along with translational elongation factors EF-Tu and EF-G and translational release factor RF-3, IF2 belongs to the subgroup of G-proteins that are part of the prokaryotic translational apparatus. The roles of ...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(00)01200-1

    authors: Larigauderie G,Laalami S,Nyengaard NR,Grunberg-Manago M,Cenatiempo Y,Mortensen KK,Sperling-Petersen HU

    更新日期:2000-12-01 00:00:00

  • Cloning of a cDNA for the S-adenosyl-L-homocysteine hydrolase from Dictyostelium discoideum.

    abstract::We screened a cDNA library of the primitive eukaryote Dictyostelium discoideum constructed in the expression vector lambda gt11 with a specific antiserum directed against S-adenosyl-L-homocysteine hydrolase (AdoHcy hydrolase) and isolated cDNA clones coding for fusion proteins with beta-galactosidase. The identity of ...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/0300-9084(88)90115-0

    authors: Guitton MC,Part D,Veron M

    更新日期:1988-06-01 00:00:00

  • Engineering of tyrosyl tRNA synthetase.

    abstract::The gene encoding the enzyme tyrosyl tRNA synthetase from Bacillus stearothermophilus has been systematically altered using synthetic oligonucleotides as mutagens. The construction of mutations has been facilitated by using strains of bacteria defective in mismatch repair and also by utilising a genetic marker in the ...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(85)80161-9

    authors: Bedouelle H,Carter P,Waye MM,Winter G,Lowe DM,Wilkinson AJ,Fersht AR

    更新日期:1985-07-01 00:00:00

  • Purification and properties of human erythrocyte delta-amino-levulinic acid dehydratase (EC 4-2-1-24).

    abstract::Human delta-aminolevulinic acid dehydratase (ALA-D) was purified 9 000-fold by salt precipitation, ion-exchange chromatography and gel filtration. These methods resulted into an electrophoretically and immunologically pure protein. The optimum pH of the enzyme is 6.6 and its Km with ALA : 4.8 X 10(-4) M. The enzymatic...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(80)80256-2

    authors: Despaux N,Comoy E,Bohuon C,Boudène C

    更新日期:1979-01-01 00:00:00

  • Nanoluciferase as a novel quantitative protein fusion tag: Application for overexpression and bioluminescent receptor-binding assays of human leukemia inhibitory factor.

    abstract::Nanoluciferase (NanoLuc) is a newly developed small luciferase reporter with the brightest bioluminescence reported to date. In the present work, we developed NanoLuc as a novel quantitative protein fusion tag for efficient overexpression in Escherichia coli and ultrasensitive bioluminescent assays using human leukemi...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2014.08.012

    authors: He SX,Song G,Shi JP,Guo YQ,Guo ZY

    更新日期:2014-11-01 00:00:00

  • OURCIN: a tool to build expert systems.

    abstract::OURCIN is a tool to build expert systems, which was developed by a joint team from INRIA and SEMA. We emphasized developing on this system the ergonomic features which make Expert Systems a comfortable and interesting approach for knowledge engineering. ...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(85)80267-4

    authors: Quinqueton J

    更新日期:1985-05-01 00:00:00

  • Antiarthritic and antiinflammatory propensity of 4-methylesculetin, a coumarin derivative.

    abstract::Coumarins are a group of natural compounds widely distributed in plants. Of late, coumarins and their derivatives have grabbed much attention from the pharmacological and pharmaceutical arena due to their broad range of therapeutical qualities. A coumarin derivative 4-methylesculetin (4-ME) has known to possess effect...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2013.02.014

    authors: Hemshekhar M,Sunitha K,Thushara RM,Sebastin Santhosh M,Shanmuga Sundaram M,Kemparaju K,Girish KS

    更新日期:2013-06-01 00:00:00

  • An empirical energy function for structural assessment of protein transmembrane domains.

    abstract::Knowing the structure of a protein is essential to characterize its function and mechanism at the molecular level. Despite major advances in solving structures experimentally, most membrane protein native conformations remain unknown. This lack of available structures, along with the physical constraints imposed by th...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2015.05.018

    authors: Postic G,Ghouzam Y,Gelly JC

    更新日期:2015-08-01 00:00:00

  • Identification and biochemical characterization of Rap2C, a new member of the Rap family of small GTP-binding proteins.

    abstract::The Rap family of small GTP-binding proteins is composed by four different members: Rap1A, Rap1B, Rap2A and Rap2B. In this work we report the identification and characterization of a fifth member of this family of small GTPases. This new protein is highly homologous to Rap2A and Rap2B, binds labeled GTP on nitrocellul...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2005.08.007

    authors: Paganini S,Guidetti GF,Catricalà S,Trionfini P,Panelli S,Balduini C,Torti M

    更新日期:2006-03-01 00:00:00

  • Empirical genome evolution models root the tree of life.

    abstract::A reliable phylogenetic reconstruction of the evolutionary history of contemporary species depends on a robust identification of the universal common ancestor (UCA) at the root of the Tree of Life (ToL). That root polarizes the tree so that the evolutionary succession of ancestors to descendants is discernable. In eff...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2017.04.014

    authors: Harish A,Kurland CG

    更新日期:2017-07-01 00:00:00

  • Serotonin in retina.

    abstract::The expression of serotonin (5-HT) in the retina was first reported in the sixties. The detection of vesicular monoamine transporter and serotonin receptors in several retinal cells confirm that 5-HT is playing a neuromodulatory role in this structure. Whereas signaling pathways activated by 5-HT receptor binding has ...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/j.biochi.2018.11.006

    authors: Masson J

    更新日期:2019-06-01 00:00:00

  • Interferon-gamma is produced by another player of innate immune responses: the interferon-producing killer dendritic cell (IKDC).

    abstract::Interferon-gamma is a key cytokine in tumor immunosurveillance. The recently described interferon-producing killer dendritic cell (IKDC), can be distinguished from other innate effectors by its ability to kill a large variety of tumor cells and to produce high amounts of interferon-gamma after encountering tumors in t...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/j.biochi.2007.04.014

    authors: Bonmort M,Ullrich E,Mignot G,Jacobs B,Chaput N,Zitvogel L

    更新日期:2007-06-01 00:00:00

  • NMR investigation of the electric properties and magnetic states of hemes and hemoproteins : the S = 2 state in ferrous porphyrins.

    abstract::The proton NMR data of a synthetic model of deoxy-myoglobin and hemoglobin show one that:(i) the ground state of the high spin iron (II) complex must be described by at least two electronic levels separated by ca.200 cm-1 and resulting from the removal of the degeneracy of the 5E level; (ii) this in-plane rhombic dist...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(82)80285-x

    authors: Mispelter J,Momenteau M,Lhoste JM

    更新日期:1981-11-01 00:00:00

  • Pathophysiological functions of cathepsin D: Targeting its catalytic activity versus its protein binding activity?

    abstract::The lysosomal aspartic protease cathepsin D (cath-D) is overexpressed and hyper-secreted by epithelial breast cancer cells. This protease is an independent marker of poor prognosis in breast cancer as it is correlated with the incidence of clinical metastasis. In normal cells, cath-D is localized in intracellular vesi...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/j.biochi.2010.05.009

    authors: Masson O,Bach AS,Derocq D,Prébois C,Laurent-Matha V,Pattingre S,Liaudet-Coopman E

    更新日期:2010-11-01 00:00:00

  • Effect of beta-agonists on expression of calpain and calpastatin activity in skeletal muscle.

    abstract::Administration of beta-adrenergic agonists to domestic species can lead to skeletal muscle hypertrophy, probably by reducing the rate of myofibrillar protein breakdown. Myofibrillar breakdown is associated with the calcium-dependent proteinase system (calpains I,II and calpastatin) whose activity also changes during b...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/0300-9084(92)90125-x

    authors: Bardsley RG,Allcock SM,Dawson JM,Dumelow NW,Higgins JA,Lasslett YV,Lockley AK,Parr T,Buttery PJ

    更新日期:1992-03-01 00:00:00

  • Inhibitors of specific ceramide synthases.

    abstract::Ceramide synthases (CerSs) are key enzymes in the biosynthesis of ceramides and display a group of at least six different isoenzymes (CerS1-6). Ceramides itself are bioactive molecules. Ceramides with different N-acyl side chains (C(14:0)-Cer - C(26:0)-Cer) possess distinct roles in cell signaling. Therefore, the sele...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/j.biochi.2011.09.007

    authors: Schiffmann S,Hartmann D,Fuchs S,Birod K,Ferreiròs N,Schreiber Y,Zivkovic A,Geisslinger G,Grösch S,Stark H

    更新日期:2012-02-01 00:00:00

  • [Chicken erythrocyte nuclei: composition and analysis of phospholipids].

    abstract::While many works analyse lipid composition of cellular nuclei, essentially of liver, few describe bird erythrocyte nuclei. For them very discordant results are reported due to very different methods of preparation. In the method we adopted a good reproducibility is controlled by electron microscopy, evaluation of spec...

    journal_title:Biochimie

    pub_type: 杂志文章

    doi:10.1016/s0300-9084(76)80126-5

    authors: Souillard C,Soula G

    更新日期:1976-01-01 00:00:00

  • Fatty acid biosynthesis in microorganisms being used for Single Cell Oil production.

    abstract::Single cell oils (SCOs) are now produced by various microorganisms as commercial sources of arachidonic acid (ARA) and docosahexaenoic acid (DHA). These oils are now used extensively as dietary supplements in infant formulas. An understanding of the underlying biochemistry and genetics of oil accumulation in such micr...

    journal_title:Biochimie

    pub_type: 杂志文章,评审

    doi:10.1016/j.biochi.2004.09.017

    authors: Ratledge C

    更新日期:2004-11-01 00:00:00