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1.
Anal Biochem ; 532: 1-8, 2017 09 01.
Artigo em Inglês | MEDLINE | ID: mdl-28552757

RESUMO

The low redox potential of selenide and selenol is physiologically important, as it confers efficient catalytic abilities to selenoproteins. Quantitative determination of selenol and selenide provide important clues for understanding the metabolism and physiological function of selenium. However, selective detection of selenol and selenide is extremely difficult because of their chemical similarity to thiol and sulfide. In this study, we established a highly sensitive, selective, quantitative, and simple method for detection of selenol and selenide, using a reaction with monochlorobimane (MCB), followed by ethyl acetate extraction of the product syn-(methyl,methyl)bimane. We analyzed selenide production from selenite, catalyzed by human glutathione reductase, and also determined selenide and selenol concentrations in Hepa1-6 cells using the MCB method, to demonstrate its practical applications. This study provides a new tool for selenium detection in biology.


Assuntos
Carcinoma Hepatocelular/diagnóstico , Fluorescência , Neoplasias Hepáticas/diagnóstico , Pirazóis/química , Compostos de Selênio/análise , Selenito de Sódio/análise , Animais , Carcinoma Hepatocelular/metabolismo , Glutationa Redutase/metabolismo , Humanos , Neoplasias Hepáticas/metabolismo , Camundongos , Pirazóis/metabolismo , Células Tumorais Cultivadas
2.
J Bacteriol ; 196(6): 1238-49, 2014 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-24415728

RESUMO

Iron-sulfur (Fe-S) clusters are ubiquitous cofactors that are crucial for many physiological processes in all organisms. In Escherichia coli, assembly of Fe-S clusters depends on the activity of the iron-sulfur cluster (ISC) assembly and sulfur mobilization (SUF) apparatus. However, the underlying molecular mechanisms and the mechanisms that control Fe-S cluster biogenesis and iron homeostasis are still poorly defined. In this study, we performed a global screen to identify the factors affecting Fe-S cluster biogenesis and iron homeostasis using the Keio collection, which is a library of 3,815 single-gene E. coli knockout mutants. The approach was based on radiolabeling of the cells with [2-(14)C]dihydrouracil, which entirely depends on the activity of an Fe-S enzyme, dihydropyrimidine dehydrogenase. We identified 49 genes affecting Fe-S cluster biogenesis and/or iron homeostasis, including 23 genes important only under microaerobic/anaerobic conditions. This study defines key proteins associated with Fe-S cluster biogenesis and iron homeostasis, which will aid further understanding of the cellular mechanisms that coordinate the processes. In addition, we applied the [2-(14)C]dihydrouracil-labeling method to analyze the role of amino acid residues of an Fe-S cluster assembly scaffold (IscU) as a model of the Fe-S cluster assembly apparatus. The analysis showed that Cys37, Cys63, His105, and Cys106 are essential for the function of IscU in vivo, demonstrating the potential of the method to investigate in vivo function of proteins involved in Fe-S cluster assembly.


Assuntos
Proteínas de Escherichia coli/genética , Proteínas de Escherichia coli/metabolismo , Escherichia coli/genética , Escherichia coli/metabolismo , Ferro/metabolismo , Redes e Vias Metabólicas/genética , Enxofre/metabolismo , Técnicas de Inativação de Genes , Homeostase , Marcação por Isótopo , Uracila/análogos & derivados , Uracila/metabolismo
3.
Biosci Biotechnol Biochem ; 78(8): 1376-80, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-25130740

RESUMO

Selenite is a selenium source for selenoprotein biosynthesis in mammalian cells. Although previous studies have suggested the involvement of glutathione (GSH) and/or thioredoxin reductase in selenite metabolism, intracellular selenite metabolism remains largely unknown. Here, we report that GSH depletion did not affect the amount of selenoprotein in Hepa 1-6 cells, suggesting that GSH does not play a central role in the reduction of selenite in selenoprotein biosynthesis. On the other hand, we found that GSH is involved in the efflux of low-molecular-weight selenium compounds from cells, presumably via the formation of selenodiglutathione. Moreover, selenite inhibited the efflux of a fluorescent bimane-GS conjugate that is mediated by ATP-dependent multidrug-resistant proteins, implying the existence of an active transporter for selenodiglutathione. This is the first report demonstrating that GSH plays a role in selenium excretion from cells by forming a GSH-conjugate, which may contribute to the distribution, detoxification, and homeostasis of selenium in the body.


Assuntos
Carcinoma Hepatocelular/patologia , Glutationa/metabolismo , Neoplasias Hepáticas/patologia , Selênio/metabolismo , Transporte Biológico , Linhagem Celular Tumoral , Glutationa/deficiência , Humanos , Proteínas de Membrana Transportadoras/metabolismo , Selenoproteínas/biossíntese
4.
J Biol Chem ; 287(29): 24113-21, 2012 Jul 13.
Artigo em Inglês | MEDLINE | ID: mdl-22648406

RESUMO

In this study, we found that phospholipids containing an eicosapentaenyl group form a novel membrane microdomain at the cell division site of a Gram-negative bacterium, Shewanella livingstonensis Ac10, using chemically synthesized fluorescent probes. The occurrence of membrane microdomains in eukaryotes and prokaryotes has been demonstrated with various imaging tools for phospholipids with different polar headgroups. However, few studies have focused on the hydrocarbon chain-dependent localization of membrane-resident phospholipids in vivo. We previously found that lack of eicosapentaenoic acid (EPA), a polyunsaturated fatty acid found at the sn-2 position of glycerophospholipids, causes a defect in cell division after DNA replication of S. livingstonensis Ac10. Here, we synthesized phospholipid probes labeled with a fluorescent 7-nitro-2,1,3-benzoxadiazol-4-yl (NBD) group to study the localization of EPA-containing phospholipids by fluorescence microscopy. A fluorescent probe in which EPA was bound to the glycerol backbone via an ester bond was found to be unsuitable for imaging because EPA was released from the probe by in vivo hydrolysis. To overcome this problem, we synthesized hydrolysis-resistant ether-type phospholipid probes. Using these probes, we found that the fluorescence localized between two nucleoids at the cell center during cell division when the cells were grown in the presence of the eicosapentaenyl group-containing probe (N-NBD-1-oleoyl-2-eicosapentaenyl-sn-glycero-3-phosphoethanolamine), whereas this localization was not observed with the oleyl group-containing control probe (N-NBD-1-oleoyl-2-oleyl-sn-glycero-3-phosphoethanolamine). Thus, phospholipids containing an eicosapentaenyl group are specifically enriched at the cell division site. Formation of a membrane microdomain enriched in EPA-containing phospholipids at the nucleoid occlusion site probably facilitates cell division.


Assuntos
Membrana Celular/metabolismo , Ácidos Graxos Insaturados/metabolismo , Microdomínios da Membrana/metabolismo , Fosfolipídeos/metabolismo , Shewanella/citologia , Shewanella/metabolismo , Divisão Celular , Ácido Eicosapentaenoico/metabolismo , Microscopia de Fluorescência , Espectrometria de Massas por Ionização por Electrospray
5.
Arch Biochem Biophys ; 540(1-2): 26-32, 2013 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-24071515

RESUMO

Several pathways of biotic dechlorination can be found in enzymes, each characterized by different chlorine isotopic fractionation, which can thus serve as a signature of a particular mechanism. Unlike other dehalogenases, DL-2-haloacid dehalogenase, DL-DEX, converts both enantiomers of the substrate. Chlorine isotope effects for this enzyme are larger than in the case of other dehalogenases. Recently, the 3D structure of this enzyme became available and enabled us to model these isotope effects and seek their origin. We show that the elevated values of the chlorine kinetic isotope effects originate in part in the processes of binding and migration within the enzyme active site that precede the dehalogenation step.


Assuntos
Hidrolases/química , Hidrolases/metabolismo , Simulação de Acoplamento Molecular , Domínio Catalítico , Cristalografia por Raios X , Inibidores Enzimáticos/metabolismo , Inibidores Enzimáticos/farmacologia , Hidrolases/antagonistas & inibidores , Hidrolases/genética , Isótopos , Mutagênese Sítio-Dirigida , Mutação , Propionatos/metabolismo , Propionatos/farmacologia , Ligação Proteica , Estereoisomerismo
6.
Biochem Biophys Res Commun ; 425(2): 363-7, 2012 Aug 24.
Artigo em Inglês | MEDLINE | ID: mdl-22842563

RESUMO

Polyunsaturated fatty acids, such as eicosapentaenoic acid (EPA), are found in various cold-adapted microorganisms. We previously demonstrated that EPA-containing phospholipids (EPA-PLs) synthesized by the psychrotrophic bacterium Shewanella livingstonensis Ac10 support cell division, membrane biogenesis, and the production of membrane proteins at low temperatures. In this article, we demonstrate the effects of EPA-PLs on the folding and conformational transition of Omp74, a major outer membrane cold-inducible protein in this bacterium. Omp74 from an EPA-less mutant migrated differently from that of the parent strain on SDS-polyacrylamide gel, suggesting that EPA-PLs affect the conformation of Omp74 in vivo. To examine the effects of EPA-PLs on Omp74 protein folding, in vitro refolding of recombinant Omp74 was carried out with liposomes composed of 1,2-dipalmitoleoyl-sn-glycero-3-phosphoglycerol and 1,2-dipalmitoleoyl-sn-glycero-3-phosphoethanolamine (1:1 molar ratio) with or without EPA-PLs as guest lipids. SDS-PAGE analysis of liposome-reconstituted Omp74 revealed more rapid folding in the presence of EPA-PLs. CD spectroscopy of Omp74 folding kinetics at 4 °C showed that EPA-PLs accelerated ß-sheet formation. These results suggest that EPA-PLs act as chemical chaperones, accelerating membrane insertion and secondary structure formation of Omp74 at low temperatures.


Assuntos
Proteínas da Membrana Bacteriana Externa/química , Proteínas da Membrana Bacteriana Externa/metabolismo , Ácido Eicosapentaenoico/metabolismo , Shewanella/metabolismo , Ácido Eicosapentaenoico/biossíntese , Lipossomos/química , Lipossomos/metabolismo , Dobramento de Proteína , Estrutura Secundária de Proteína
7.
Chemistry ; 18(27): 8392-402, 2012 Jul 02.
Artigo em Inglês | MEDLINE | ID: mdl-22674735

RESUMO

The high substrate specificity of fluoroacetate dehalogenase was explored by using crystallographic analysis, fluorescence spectroscopy, and theoretical computations. A crystal structure for the Asp104Ala mutant of the enzyme from Burkholderia sp. FA1 complexed with fluoroacetate was determined at 1.2 Å resolution. The orientation and conformation of bound fluoroacetate is different from those in the crystal structure of the corresponding Asp110Asn mutant of the enzyme from Rhodopseudomonas palustris CGA009 reported recently (J. Am. Chem. Soc. 2011, 133, 7461). The fluorescence of the tryptophan residues of the wild-type and Trp150Phe mutant enzymes from Burkholderia sp. FA1 incubated with fluoroacetate and chloroacetate was measured to gain information on the environment of the tryptophan residues. The environments of the tryptophan residues were found to be different between the fluoroacetate- and chloroacetate-bound enzymes; this would come from different binding modes of these two substrates in the active site. Docking simulations and QM/MM optimizations were performed to predict favorable conformations and orientations of the substrates. The F atom of the substrate is oriented toward Arg108 in the most stable enzyme-fluoroacetate complex. This is a stable but unreactive conformation, in which the small O-C-F angle is not suitable for the S(N)2 displacement of the F(-) ion. The cleavage of the C-F bond is initiated by the conformational change of the substrate to a near attack conformation (NAC) in the active site. The second lowest energy conformation is appropriate for NAC; the C-O distance and the O-C-F angle are reasonable for the S(N) 2 reaction. The activation energy is greatly reduced in this conformation because of three hydrogen bonds between the leaving F atom and surrounding amino acid residues. Chloroacetate cannot reach the reactive conformation, due to the longer C-Cl bond; this results in an increase of the activation energy despite the weaker C-Cl bond.


Assuntos
Burkholderia/enzimologia , Hidrolases/metabolismo , Rodopseudomonas/enzimologia , Espectrometria de Fluorescência/métodos , Sítios de Ligação , Catálise , Simulação por Computador , Fluoracetatos/química , Fluoracetatos/metabolismo , Histidina/química , Hidrolases/química , Modelos Teóricos , Conformação Molecular , Especificidade por Substrato , Triptofano/química , Tirosina/química
8.
Extremophiles ; 16(2): 227-36, 2012 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-22212654

RESUMO

Shewanella livingstonensis Ac10 is a psychrotrophic Gram-negative bacterium that grows at temperatures close to 0°C. Previous proteomic studies of this bacterium identified cold-inducible soluble proteins and outer membrane proteins that could possibly be involved in its cold adaptation (Kawamoto et al. in Extremophiles 11:819-826, 2007). In this study, we established a method for separating the inner and outer membranes by sucrose density gradient ultracentrifugation and performed proteomic studies of the inner membrane fraction. The cells were grown at temperatures of 4 and 18°C, and phospholipid-enriched inner membrane fractions were obtained. Two-dimensional polyacrylamide gel electrophoresis and peptide mass fingerprinting analysis of the proteins identified 14 cold-inducible proteins (more than a 2-fold increase at 4°C). Six of these proteins were predicted to be inner membrane proteins. Two predicted periplasmic proteins, 5 predicted cytoplasmic proteins, and 1 predicted outer membrane protein were also found in the inner membrane fraction, suggesting their association with the inner membrane proteins and/or lipids. These cold-inducible proteins included proteins that are presumed to be involved in chemotaxis (AtoS and PspA), membrane protein biogenesis (DegP, SurA, and FtsY), and morphogenesis (MreB). These findings provide a basis for further studies on the cold-adaptation mechanism of this bacterium.


Assuntos
Regulação Bacteriana da Expressão Gênica , Proteômica/métodos , Shewanella/metabolismo , Adaptação Fisiológica/genética , Bactérias/genética , Proteínas da Membrana Bacteriana Externa/metabolismo , Proteínas de Bactérias/química , Centrifugação com Gradiente de Concentração/métodos , Temperatura Baixa , Citoplasma/metabolismo , Eletroforese em Gel Bidimensional/métodos , Bactérias Gram-Negativas/metabolismo , Lipídeos/química , Temperatura
9.
J Bacteriol ; 193(4): 989-93, 2011 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-21169495

RESUMO

The reductive pyrimidine catabolic pathway is absent in Escherichia coli. However, the bacterium contains an enzyme homologous to mammalian dihydropyrimidine dehydrogenase. Here, we show that E. coli dihydropyrimidine dehydrogenase is the first member of a novel NADH-dependent subclass of iron-sulfur flavoenzymes catalyzing the conversion of uracil to 5,6-dihydrouracil in vivo.


Assuntos
Di-Hidrouracila Desidrogenase (NADP)/metabolismo , Proteínas de Escherichia coli/metabolismo , NAD/metabolismo , Uracila/análogos & derivados , Di-Hidrouracila Desidrogenase (NADP)/química , Di-Hidrouracila Desidrogenase (NADP)/genética , Dimerização , Escherichia coli/química , Escherichia coli/classificação , Escherichia coli/enzimologia , Escherichia coli/metabolismo , Proteínas de Escherichia coli/química , Proteínas de Escherichia coli/genética , Cinética , Dados de Sequência Molecular , Filogenia , Uracila/metabolismo
10.
J Biol Chem ; 285(4): 2302-8, 2010 Jan 22.
Artigo em Inglês | MEDLINE | ID: mdl-19946146

RESUMO

The persulfide sulfur formed on an active site cysteine residue of pyridoxal 5'-phosphate-dependent cysteine desulfurases is subsequently incorporated into the biosynthetic pathways of a variety of sulfur-containing cofactors and thionucleosides. In molybdenum cofactor biosynthesis, MoeB activates the C terminus of the MoaD subunit of molybdopterin (MPT) synthase to form MoaD-adenylate, which is subsequently converted to a thiocarboxylate for the generation of the dithiolene group of MPT. It has been shown that three cysteine desulfurases (CsdA, SufS, and IscS) of Escherichia coli can transfer sulfur from l-cysteine to the thiocarboxylate of MoaD in vitro. Here, we demonstrate by surface plasmon resonance analyses that IscS, but not CsdA or SufS, interacts with MoeB and MoaD. MoeB and MoaD can stimulate the IscS activity up to 1.6-fold. Analysis of the sulfuration level of MoaD isolated from strains defective in cysteine desulfurases shows a largely decreased sulfuration level of the protein in an iscS deletion strain but not in a csdA/sufS deletion strain. We also show that another iscS deletion strain of E. coli accumulates compound Z, a direct oxidation product of the immediate precursor of MPT, to the same extent as an MPT synthase-deficient strain. In contrast, analysis of the content of compound Z in DeltacsdA and DeltasufS strains revealed no such accumulation. These findings indicate that IscS is the primary physiological sulfur-donating enzyme for the generation of the thiocarboxylate of MPT synthase in MPT biosynthesis.


Assuntos
Liases de Carbono-Enxofre/metabolismo , Coenzimas/biossíntese , Proteínas de Escherichia coli/metabolismo , Escherichia coli/enzimologia , Metaloproteínas/biossíntese , Nucleotidiltransferases/metabolismo , Sulfurtransferases/metabolismo , Liases de Carbono-Enxofre/química , Domínio Catalítico , Cisteína/metabolismo , Proteínas de Escherichia coli/química , Cofatores de Molibdênio , Nucleotidiltransferases/química , Ligação Proteica , Pteridinas , Especificidade da Espécie , Enxofre/metabolismo , Compostos de Enxofre/metabolismo , Sulfurtransferases/química , Ressonância de Plasmônio de Superfície
11.
J Biol Chem ; 285(16): 12133-9, 2010 Apr 16.
Artigo em Inglês | MEDLINE | ID: mdl-20164179

RESUMO

Selenocysteine lyase (SCL) catalyzes the pyridoxal 5'-phosphate-dependent removal of selenium from l-selenocysteine to yield l-alanine. The enzyme is proposed to function in the recycling of the micronutrient selenium from degraded selenoproteins containing selenocysteine residue as an essential component. The enzyme exhibits strict substrate specificity toward l-selenocysteine and no activity to its cognate l-cysteine. However, it remains unclear how the enzyme distinguishes between selenocysteine and cysteine. Here, we present mechanistic studies of selenocysteine lyase from rat. ESI-MS analysis of wild-type and C375A mutant SCL revealed that the catalytic reaction proceeds via the formation of an enzyme-bound selenopersulfide intermediate on the catalytically essential Cys-375 residue. UV-visible spectrum analysis and the crystal structure of SCL complexed with l-cysteine demonstrated that the enzyme reversibly forms a nonproductive adduct with l-cysteine. Cys-375 on the flexible loop directed l-selenocysteine, but not l-cysteine, to the correct position and orientation in the active site to initiate the catalytic reaction. These findings provide, for the first time, the basis for understanding how trace amounts of a selenium-containing substrate is distinguished from excessive amounts of its cognate sulfur-containing compound in a biological system.


Assuntos
Liases/química , Liases/metabolismo , Selênio/metabolismo , Enxofre/metabolismo , Substituição de Aminoácidos , Animais , Sequência de Bases , Domínio Catalítico/genética , Sequência Conservada , Cristalografia por Raios X , Cisteína/química , Primers do DNA/genética , Técnicas In Vitro , Liases/genética , Modelos Moleculares , Mutagênese Sítio-Dirigida , Conformação Proteica , Multimerização Proteica , Ratos , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Espectrometria de Massas por Ionização por Electrospray , Especificidade por Substrato
12.
Environ Microbiol ; 13(8): 2293-8, 2011 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-21518217

RESUMO

Shewanella violacea DSS12, a deep-sea bacterium, produces eicosapentaenoic acid (EPA) as a component of membrane phospholipids. Although various isolates from the deep sea, such as Photobacterium profundum SS9, Colwellia psychrerythraea 34H and various Shewanella strains, produce EPA- or docosahexaenoic acid-containing phospholipids, the physiological role of these polyunsaturated fatty acids remains unclear. In this article, we illustrate the physiological importance of EPA for high-pressure adaptation in strain DSS12 with the help of an EPA-deficient mutant (DSS12(pfaA)). DSS12(pfaA) showed significant growth retardation at 30 MPa, but not at 0.1 MPa. We also found that DSS12(pfaA) grown at 30 MPa forms filamentous cells. When an EPA-containing phospholipid (sn-1-oleoly-sn-2-eicosapentaenoyl phosphatidylethanolamine) was supplemented, the growth retardation and the morphological defect of DSS12(pfaA) were suppressed, indicating that the externally added EPA-containing phospholipid compensated for the loss of endogenous EPA. In contrast, the addition of an oleic acid-containing phospholipid (sn-1,2-dioleoyl phosphatidylethanolamine) did not affect the growth and the morphology of the cells. Immunofluorescent microscopic analysis with anti-FtsZ antibody revealed a number of Z-rings and separated nucleoids in DSS12(pfaA) grown at 30 MPa. These results demonstrate the physiological importance of EPA for the later step of Z-ring formation of S. violacea DSS12 under high-pressure conditions.


Assuntos
Divisão Celular , Ácido Eicosapentaenoico/genética , Ácido Eicosapentaenoico/metabolismo , Pressão Hidrostática , Shewanella/fisiologia , Adaptação Fisiológica/genética , Animais , Divisão Celular/efeitos dos fármacos , Divisão Celular/genética , Ácido Eicosapentaenoico/farmacologia , Mutação , Fosfolipídeos/genética , Fosfolipídeos/metabolismo , Shewanella/citologia , Shewanella/efeitos dos fármacos , Shewanella/genética , Shewanella/metabolismo
13.
Appl Microbiol Biotechnol ; 91(1): 47-61, 2011 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-21603932

RESUMO

Cysteine desulfurases are pyridoxal 5'-phosphate-dependent homodimeric enzymes that catalyze the conversion of L-cysteine to L-alanine and sulfane sulfur via the formation of a protein-bound cysteine persulfide intermediate on a conserved cysteine residue. The enzymes are capable of donating the persulfide sulfur atoms to a variety of biosynthetic pathways for sulfur-containing biofactors, such as iron-sulfur clusters, thiamin, transfer RNA thionucleosides, biotin, and lipoic acid. The enormous advances in biochemical and structural studies of these biosynthetic pathways over the past decades provide an opportunity for detailed understanding of the nature of the excellent sulfur transfer mechanism of cysteine desulfurases.


Assuntos
Bactérias/enzimologia , Proteínas de Bactérias/metabolismo , Vias Biossintéticas , Liases de Carbono-Enxofre/metabolismo , Enxofre/metabolismo , Bactérias/genética , Bactérias/metabolismo , Proteínas de Bactérias/genética , Liases de Carbono-Enxofre/genética , RNA Bacteriano/genética , RNA Bacteriano/metabolismo
14.
Biosci Biotechnol Biochem ; 75(6): 1184-7, 2011.
Artigo em Inglês | MEDLINE | ID: mdl-21670519

RESUMO

Selenite (SeO(3)(2-)) assimilation into a bacterial selenoprotein depends on thioredoxin (trx) reductase in Esherichia coli, but the molecular mechanism has not been elucidated. The mineral-oil overlay method made it possible to carry out anaerobic enzyme assay, which demonstrated an initial lag-phase followed by time-dependent steady NADPH consumption with a positive cooperativity toward selenite and trx. SDS-PAGE/autoradiography using (75)Se-labeled selenite as substrate revealed the formation of trx-bound selenium in the reaction mixture. The protein-bound selenium has metabolic significance in being stabilized in the divalent state, and it also produced the selenopersulfide (-S-SeH) form by the catalysis of E. coli trx reductase (TrxB).


Assuntos
Proteínas de Bactérias/metabolismo , Escherichia coli/enzimologia , Proteínas Recombinantes/metabolismo , Radioisótopos de Selênio/metabolismo , Selenoproteínas/metabolismo , Tiorredoxina Dissulfeto Redutase/metabolismo , Tiorredoxinas/metabolismo , Anaerobiose , Autorradiografia , Proteínas de Bactérias/genética , Eletroforese em Gel de Poliacrilamida , Escherichia coli/genética , Cinética , NADP/metabolismo , Oxirredução , Ligação Proteica , Proteínas Recombinantes/genética , Selenoproteínas/genética , Selenito de Sódio/metabolismo , Tiorredoxina Dissulfeto Redutase/genética
15.
J Biol Chem ; 284(38): 25944-52, 2009 Sep 18.
Artigo em Inglês | MEDLINE | ID: mdl-19640845

RESUMO

D-serine is an endogenous coagonist for the N-methyl-D-aspartate receptor and is involved in excitatory neurotransmission in the brain. Mammalian pyridoxal 5'-phosphate-dependent serine racemase, which is localized in the mammalian brain, catalyzes the racemization of L-serine to yield D-serine and vice versa. The enzyme also catalyzes the dehydration of D- and L-serine. Both reactions are enhanced by Mg.ATP in vivo. We have determined the structures of the following three forms of the mammalian enzyme homolog from Schizosaccharomyces pombe: the wild-type enzyme, the wild-type enzyme in the complex with an ATP analog, and the modified enzyme in the complex with serine at 1.7, 1.9, and 2.2 A resolution, respectively. On binding of the substrate, the small domain rotates toward the large domain to close the active site. The ATP binding site was identified at the domain and the subunit interface. Computer graphics models of the wild-type enzyme complexed with L-serine and D-serine provided an insight into the catalytic mechanisms of both reactions. Lys-57 and Ser-82 located on the protein and solvent sides, respectively, with respect to the cofactor plane, are acid-base catalysts that shuttle protons to the substrate. The modified enzyme, which has a unique "lysino-D-alanyl" residue at the active site, also exhibits catalytic activities. The crystal-soaking experiment showed that the substrate serine was actually trapped in the active site of the modified enzyme, suggesting that the lysino-D-alanyl residue acts as a catalytic base in the same manner as inherent Lys-57 of the wild-type enzyme.


Assuntos
Trifosfato de Adenosina/química , Racemases e Epimerases/química , Proteínas de Schizosaccharomyces pombe/química , Schizosaccharomyces/enzimologia , Serina/química , Trifosfato de Adenosina/metabolismo , Animais , Catálise , Domínio Catalítico/fisiologia , Mamíferos , Estrutura Terciária de Proteína/fisiologia , Racemases e Epimerases/metabolismo , Proteínas de Schizosaccharomyces pombe/metabolismo , Serina/metabolismo , Homologia Estrutural de Proteína
16.
Appl Environ Microbiol ; 76(18): 6032-7, 2010 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-20656877

RESUMO

Enzymes catalyzing the conversion of organohalogen compounds are useful in the chemical industry and environmental technology. Here we report the occurrence of a new reduced flavin adenine dinucleotide (FAD) (FADH(2))-dependent enzyme that catalyzes the removal of a halogen atom from an unsaturated aliphatic organohalogen compound by the addition of a water molecule to the substrate. A soil bacterium, Pseudomonas sp. strain YL, inducibly produced a protein named Caa67(YL) when the cells were grown on 2-chloroacrylate (2-CAA). The caa67(YL) gene encoded a protein of 547 amino acid residues (M(r) of 59,301), which shared weak but significant sequence similarity with various flavoenzymes and contained a nucleotide-binding motif. We found that 2-CAA is converted into pyruvate when the reaction was carried out with purified Caa67(YL) in the presence of FAD and a reducing agent [NAD(P)H or sodium dithionite] under anaerobic conditions. The reducing agent was not stoichiometrically consumed during this reaction, suggesting that FADH(2) is conserved by regeneration in the catalytic cycle. When the reaction was carried out in the presence of H(2)(18)O, [(18)O]pyruvate was produced. These results indicate that Caa67(YL) catalyzes the hydration of 2-CAA to form 2-chloro-2-hydroxypropionate, which is chemically unstable and probably spontaneously dechlorinated to form pyruvate. 2-Bromoacrylate, but not other 2-CAA analogs such as acrylate and methacrylate, served as the substrate of Caa67(YL). Thus, we named this new enzyme 2-haloacrylate hydratase. The enzyme is very unusual in that it requires the reduced form of FAD for hydration, which involves no net change in the redox state of the coenzyme or substrate.


Assuntos
Proteínas de Bactérias/metabolismo , Hidroliases/metabolismo , Pseudomonas/enzimologia , Água/metabolismo , Acrilatos , Sequência de Bases , Catálise , Primers do DNA/genética , Ditionita , Eletroforese em Gel de Poliacrilamida , Flavina-Adenina Dinucleotídeo , Halogenação/fisiologia , Concentração de Íons de Hidrogênio , Dados de Sequência Molecular , Análise de Sequência de DNA , Homologia de Sequência , Temperatura
17.
Artigo em Inglês | MEDLINE | ID: mdl-20606277

RESUMO

L-Azetidine-2-carboxylate hydrolase from Pseudomonas sp. strain A2C catalyzes a ring-opening reaction that detoxifies L-azetidine-2-carboxylate, an analogue of L-proline. Recombinant L-azetidine-2-carboxylate hydrolase was overexpressed, purified and crystallized using polyethylene glycol and magnesium acetate as precipitants. The needle-shaped crystal belonged to space group P2(1), with unit-cell parameters a = 35.6, b = 63.6, c = 54.7 A, beta = 105.5 degrees . The crystal diffracted to a resolution of 1.38 A. The calculated V(M) value was 2.2 A(3) Da(-1), suggesting that the crystal contains one enzyme subunit in the asymmetric unit.


Assuntos
Hidrolases/química , Pseudomonas/enzimologia , Sequência de Aminoácidos , Cristalização , Cristalografia por Raios X , Dados de Sequência Molecular , Alinhamento de Sequência
18.
Biosci Biotechnol Biochem ; 74(9): 1953-5, 2010.
Artigo em Inglês | MEDLINE | ID: mdl-20834140

RESUMO

Phosphatidylserine plays an important role in cell membranes. We have reported the occurrence of phosphatidyl-D-serine (D-PS) in the rat cerebrum. Here, we describe the tissue distribution of D-PS in the rat. The D/D+L ratio of D-PS in the cerebrum was 0.9%, while no detectable amount of D-PS was detected in the cerebellum. D-PS was also found in the heart, spleen, lung, testis, liver, and kidney in a range of 0.05-0.7% (the D/D+L ratio). Thus, D-PS, even in small amounts, is localized to the cerebrum in the brain and is distributed to various tissues other than the brain in the rat.


Assuntos
Fosfatidilserinas/análise , Distribuição Tecidual , Animais , Química Encefálica , Cérebro/química , Ratos , Estereoisomerismo
19.
J Bacteriol ; 191(2): 632-40, 2009 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-19011019

RESUMO

Shewanella livingstonensis Ac10, a psychrotrophic gram-negative bacterium isolated from Antarctic seawater, produces eicosapentaenoic acid (EPA) as a component of phospholipids at low temperatures. EPA constitutes about 5% of the total fatty acids of cells grown at 4 degrees C. We found that five genes, termed orf2, orf5, orf6, orf7, and orf8, are specifically required for the synthesis of EPA by targeted disruption of the respective genes. The mutants lacking EPA showed significant growth retardation at 4 degrees C but not at 18 degrees C. Supplementation of a synthetic phosphatidylethanolamine that contained EPA at the sn-2 position complemented the growth defect. The EPA-less mutant became filamentous, and multiple nucleoids were observed in a single cell at 4 degrees C, indicating that the mutant has a defect in cell division. Electron microscopy of the cells by high-pressure freezing and freeze-substitution revealed abnormal intracellular membranes in the EPA-less mutant at 4 degrees C. We also found that the amounts of several membrane proteins were affected by the depletion of EPA. While polyunsaturated fatty acids are often considered to increase the fluidity of the hydrophobic membrane core, diffusion of a small hydrophobic molecule, pyrene, in the cell membranes and large unilamellar vesicles prepared from the lipid extracts was very similar between the EPA-less mutant and the parental strain. These results suggest that EPA in S. livingstonensis Ac10 is not required for bulk bilayer fluidity but plays a beneficial role in membrane organization and cell division at low temperatures, possibly through specific interaction between EPA and proteins involved in these cellular processes.


Assuntos
Divisão Celular , Membrana Celular/metabolismo , Ácido Eicosapentaenoico/metabolismo , Shewanella/fisiologia , Adaptação Fisiológica , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Membrana Celular/genética , Temperatura Baixa , Fluidez de Membrana , Mutação , Fosfolipídeos/metabolismo , Shewanella/citologia , Shewanella/genética
20.
J Bacteriol ; 191(8): 2630-7, 2009 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-19218394

RESUMO

Fluoroacetate dehalogenase catalyzes the hydrolytic defluorination of fluoroacetate to produce glycolate. The enzyme is unique in that it catalyzes the cleavage of a carbon-fluorine bond of an aliphatic compound: the bond energy of the carbon-fluorine bond is among the highest found in natural products. The enzyme also acts on chloroacetate, although much less efficiently. We here determined the X-ray crystal structure of the enzyme from Burkholderia sp. strain FA1 as the first experimentally determined three-dimensional structure of fluoroacetate dehalogenase. The enzyme belongs to the alpha/beta hydrolase superfamily and exists as a homodimer. Each subunit consists of core and cap domains. The catalytic triad, Asp104-His271-Asp128, of which Asp104 serves as the catalytic nucleophile, was found in the core domain at the domain interface. The active site was composed of Phe34, Asp104, Arg105, Arg108, Asp128, His271, and Phe272 of the core domain and Tyr147, His149, Trp150, and Tyr212 of the cap domain. An electron density peak corresponding to a chloride ion was found in the vicinity of the N(epsilon1) atom of Trp150 and the N(epsilon2) atom of His149, suggesting that these are the halide ion acceptors. Site-directed replacement of each of the active-site residues, except for Trp150, by Ala caused the total loss of the activity toward fluoroacetate and chloroacetate, whereas the replacement of Trp150 caused the loss of the activity only toward fluoroacetate. An interaction between Trp150 and the fluorine atom is probably an absolute requirement for the reduction of the activation energy for the cleavage of the carbon-fluorine bond.


Assuntos
Proteínas de Bactérias/química , Proteínas de Bactérias/metabolismo , Burkholderia/química , Burkholderia/enzimologia , Hidrolases/química , Hidrolases/metabolismo , Acetatos/metabolismo , Substituição de Aminoácidos/genética , Proteínas de Bactérias/genética , Domínio Catalítico , Cristalografia por Raios X , Análise Mutacional de DNA , Fluoracetatos/metabolismo , Hidrolases/genética , Modelos Moleculares , Mutagênese Sítio-Dirigida , Estrutura Quaternária de Proteína , Estrutura Terciária de Proteína
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