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1.
Biochemistry ; 40(46): 13779-87, 2001 Nov 20.
Artigo em Inglês | MEDLINE | ID: mdl-11705367

RESUMO

Cholesterol oxidase catalyzes the oxidation and isomerization of cholesterol to cholest-4-en-3-one. An asparagine residue (Asn485) at the active site is believed to play an important role in catalysis. To test the precise role of Asn485, we mutated it to a leucine and carried out kinetic and crystallographic studies. Steady-state kinetic analysis revealed a 1300-fold decrease in the oxidation k(cat)/K(m) for the mutant enzyme whereas the k(cat)/K(m) for isomerization is only 60-fold slower. The primary kinetic isotope effect in the mutant-catalyzed reaction indicates that 3alpha-H transfer remains the rate-determining step. Measurement of the reduction potentials for the wild-type and N485L enzymes reveals a 76 mV decrease in the reduction potential of the FAD for the mutant enzyme relative to wild type. The crystal structure of the mutant, determined to 1.5 A resolution, reveals a repositioning of the side chain of Met122 near Leu485 to form a hydrophobic pocket. Furthermore, the movement of Met122 facilitates the binding of an additional water molecule, possibly mimicking the position of the equatorial hydroxyl group of the steroid substrate. The wild-type enzyme shows a novel N-H...pi interaction between the side chain of Asn485 and the pyrimidine ring of the cofactor. The loss of this interaction in the N485L mutant destabilizes the reduced flavin and accounts for the decreased reduction potential and rate of oxidation. Thus, the observed structural rearrangement of residues at the active site, as well as the kinetic data and thermodynamic data for the mutant, suggests that Asn485 is important for creating an electrostatic potential around the FAD cofactor enhancing the oxidation reaction.


Assuntos
Asparagina/química , Colesterol Oxidase/química , Flavina-Adenina Dinucleotídeo/química , Asparagina/genética , Sítios de Ligação/genética , Catálise , Colesterol Oxidase/genética , Colesterol Oxidase/metabolismo , Cristalização , Cristalografia por Raios X , Deutério/química , Ligação de Hidrogênio , Cinética , Leucina/genética , Mutagênese Sítio-Dirigida , Oxirredução , Proteínas Recombinantes/biossíntese , Proteínas Recombinantes/química , Proteínas Recombinantes/metabolismo , Eletricidade Estática , Streptomyces/enzimologia , Streptomyces/genética , Especificidade por Substrato/genética
2.
Arch Biochem Biophys ; 394(1): 54-60, 2001 Oct 01.
Artigo em Inglês | MEDLINE | ID: mdl-11566027

RESUMO

The human PDE4A catalytic domain (PDE4A330-723) expressed in Sf9 cells was found to be heavily phosphorylated on both serines of the conserved SPS motif by mass spectrometric analysis. The purified protein exists as a tetramer at a concentration approximately 1 mg/ml from light scattering measurement and has a Km of 2 microM in hydrolyzing cAMP. In comparison, a partially purified PDE4A330-723 expressed in Escherichia coli has an apparent Km of 10 microM. The EC50 values for the Mg2+- or Co2+-mediated cAMP hydrolysis between the two enzymes differed by less than twofold. In addition, both enzymes exhibit similar sensitivities toward inhibition by a diverse set of inhibitors. Together with the fact that its adjacent peptide was covalently labeled by an electrophilic cAMP analogue, these results support that the SPS motif is not part of but is positioned near the active site. An efficient purification protocol that provides a highly purified PDE4A catalytic domain suitable for crystallization study is described.


Assuntos
3',5'-AMP Cíclico Fosfodiesterases/química , 3',5'-AMP Cíclico Fosfodiesterases/isolamento & purificação , Escherichia coli , Spodoptera , 3',5'-AMP Cíclico Fosfodiesterases/genética , 3',5'-AMP Cíclico Fosfodiesterases/metabolismo , Motivos de Aminoácidos , Animais , Domínio Catalítico , Cátions Bivalentes/metabolismo , Linhagem Celular , Cromatografia em Gel , Coenzimas/metabolismo , AMP Cíclico/metabolismo , Nucleotídeo Cíclico Fosfodiesterase do Tipo 4 , Inibidores Enzimáticos/metabolismo , Escherichia coli/genética , Humanos , Hidrólise , Fosforilação , Ligação Proteica , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/isolamento & purificação , Proteínas Recombinantes/metabolismo , Espectrometria de Massas por Ionização por Electrospray
3.
Eur J Biochem ; 268(14): 4044-53, 2001 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-11453999

RESUMO

Ophidian L-amino-acid oxidase (L-amino-acid oxygen:oxidoreductase, deaminating, EC 1.4.3.2) is found in the venom of many poisonous snakes (crotalids, elapids and viperids). This FAD-dependent glycoprotein has been studied from several snake species (e.g. Crotalus adamanteus, Crotalus atrox and Calloselasma rhodostoma) in detail with regard to the biochemical and enzymatic properties. The nature of glycosylation, however, as well as the chemical structure(s) of the attached oligosaccharide(s) are unknown. In view of the putative involvement of the glycan moiety in the biological effects of ophidian L-amino-acid oxidase, notably the apoptotic activity of the enzyme, structural knowledge is needed to evaluate its exact function. In this study we report on the glycosylation of L-amino-acid oxidase from the venom of the Malayan pit viper (Calloselasma rhodostoma). Its glycosylation is remarkably homogeneous with the major oligosaccharide accounting for approximately 90% of the total sugar content. Based on detailed analysis of the isolated oligosaccharide by 2D NMR spectroscopies and MALDI-TOF mass spectrometry the glycan is identified as a bis-sialylated, biantennary, core-fucosylated dodecasaccharide. The biological significance of this finding is discussed in light of the biological activities of the enzyme.


Assuntos
Aminoácido Oxirredutases/química , Venenos de Crotalídeos/enzimologia , Glicoproteínas/química , Oligossacarídeos/química , Viperidae , Animais , Sequência de Carboidratos , L-Aminoácido Oxidase , Espectrometria de Massas , Modelos Moleculares , Dados de Sequência Molecular , Ressonância Magnética Nuclear Biomolecular
4.
J Biol Chem ; 276(32): 30435-41, 2001 Aug 10.
Artigo em Inglês | MEDLINE | ID: mdl-11397813

RESUMO

Cholesterol oxidase is a monomeric flavoenzyme that catalyzes the oxidation and isomerization of cholesterol to cholest-4-en-3-one. Two forms of the enzyme are known, one containing the cofactor non-covalently bound to the protein and one in which the cofactor is covalently linked to a histidine residue. The x-ray structure of the enzyme from Brevibacterium sterolicum containing covalently bound FAD has been determined and refined to 1.7-A resolution. The active site consists of a cavity sealed off from the exterior of the protein. A model for the steroid substrate, cholesterol, can be positioned in the pocket revealing the structural factors that result in different substrate binding affinities between the two known forms of the enzyme. The structure suggests that Glu(475), located at the active site cavity, may act as the base for both the oxidation and the isomerization steps of the catalytic reaction. A water-filled channel extending toward the flavin moiety, inside the substrate-binding cavity, may act as the entry point for molecular oxygen for the oxidative half-reaction. An arginine and a glutamate residue at the active site, found in two conformations are proposed to control oxygen access to the cavity from the channel. These concerted side chain movements provide an explanation for the biphasic mode of reaction with dioxygen and the ping-pong kinetic mechanism exhibited by the enzyme.


Assuntos
Arginina/química , Colesterol Oxidase/química , Ácido Glutâmico/química , Oxigênio/metabolismo , Sítios de Ligação , Brevibacterium/enzimologia , Colesterol/química , Colesterol Oxidase/metabolismo , Elétrons , Flavinas/química , Cinética , Modelos Químicos , Modelos Moleculares , Ligação Proteica , Conformação Proteica , Estrutura Secundária de Proteína , Estrutura Terciária de Proteína , Proteínas Recombinantes/metabolismo
5.
Chem Biol Interact ; 130-132(1-3): 29-38, 2001 Jan 30.
Artigo em Inglês | MEDLINE | ID: mdl-11306028

RESUMO

The fatty aldehyde dehydrogenase (Vh-ALDH) isolated from the luminescent bacterium, Vibrio harveyi, differs from other aldehyde dehydrogenases in its high affinity for NADP(+). The binding of NADP(+) appears to arise from the interaction of the 2'-phosphate of the adenosine moiety of NADP(+) with a threonine (T175) in the nucleotide recognition site just after the beta(B) strand as well as with an arginine (R210) that pi stacks over the adenosine moiety. The active site of Vh-ALDH contains the usual suspects of a cysteine (C289), two glutamates (E253 and E377) and an asparagine (N147) involved in the aldehyde dehydrogenase mechanism. However, Vh-ALDH has one polar residue in the active site that distinguishes it from other ALDHs; a histidine (H450) is in close contact with the cysteine nucleophile. As a glutamate has been implicated in promoting the nucleophilicity of the active site cysteine residue in ALDHs, the close contact of a histidine with the cysteine nucleophile in Vh-ALDH raises the possibility of alternate routes to increase the reactivity of the cysteine nucleophile. The effects of mutation of these residues on the different functions catalyzed by Vh-ALDH including acylation, (thio)esterase, reductase and dehydrogenase activities should help define the specific roles of the residues in the active site of ALDHs.


Assuntos
Aldeído Desidrogenase/química , Aldeído Desidrogenase/metabolismo , Vibrio/enzimologia , Aldeído Desidrogenase/genética , Domínio Catalítico , Ligação de Hidrogênio , Cinética , Modelos Moleculares , NADP/metabolismo , Mutação Puntual , Conformação Proteica , Especificidade por Substrato , Vibrio/genética
6.
Acta Crystallogr D Biol Crystallogr ; 57(Pt 4): 582-5, 2001 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-11264589

RESUMO

The final two steps of the meta-cleavage pathway for catechol degradation in Pseudomonas sp. strain CF600 involve the conversion of 4-hydroxy-2-ketovalerate to pyruvate and acetyl coenzyme A by the enzymes 4-hydroxy-2-ketovalerate aldolase and NAD(+)-dependent acylating aldehyde dehydrogenase. Biochemical studies indicate that these two enzymes comprise a bifunctional heterodimer (DmpFG, molecular mass 71 kDa) and suggest that the product of the aldolase reaction is transferred to the dehydrogenase active site via a channeling mechanism. Crystals of the DmpFG complex grow in multiple fan-like clusters of thin plates by the hanging-drop method and are improved by streak-seeding. The crystals belong to the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 102.0, b = 140.7, c = 191.3 A, and diffract to 2.1 A resolution. The asymmetric unit contains four DmpFG heterodimers. Heavy-atom derivative screening identified three isomorphous derivatives.


Assuntos
Aldeído Oxirredutases/química , Complexos Multienzimáticos/química , Oxo-Ácido-Liases/química , Pseudomonas/enzimologia , Aldeído Oxirredutases/metabolismo , Sítios de Ligação , Cristalização , Dimerização , Complexos Multienzimáticos/metabolismo , NAD/metabolismo , Oxo-Ácido-Liases/metabolismo , Homologia de Sequência de Aminoácidos , Software , Difração de Raios X/métodos
7.
Biochemistry ; 39(47): 14409-18, 2000 Nov 28.
Artigo em Inglês | MEDLINE | ID: mdl-11087393

RESUMO

Aldehyde dehydrogenases (ALDHs) catalyze the transfer to NAD(P) of a hydride ion from a thiohemiacetal derivative of the aldehyde coupled with a cysteine residue in the active site. In Vibrio harveyi aldehyde dehydrogenase (Vh-ALDH), a histidine residue (H450) is in proximity (3.8 A) to the cysteine nucleophile (C289) and is thus capable of increasing its reactivity in sharp contrast to other ALDHs in which more distantly located glutamic acid residues are proposed to act as the general base. Mutation of H450 in Vh-ALDH to Gln and Asn resulted in loss of dehydrogenase, (thio)esterase, and acyl-CoA reductase activities; the residual activity of H450Q was higher than that of the H450N mutant in agreement with the capability of Gln but not Asn to partially replace the epsilon-imino group of H450. Coupled with a change in the rate-limiting step, these results indicate that H450 increases the reactivity of C289. Moreover, for the first time, the acylated enzyme intermediate could be directly monitored after reaction with [(3)H]tetradecanoyl-CoA showing that the H450Q mutant was acylated more rapidly than the H450N mutant. Inactivation of the wild-type enzyme with N-ethylmaleimide was much more rapid than the H450Q mutant which in turn was faster than the H450N mutant, demonstrating directly that the nucleophilicity of C289 was affected by H450. As the glutamic acid residue implicated as the general base in promoting cysteine nucleophilicity in other ALDHs is conserved in Vh-ALDH, elucidation of why a histidine residue has evolved to assist in this function in Vh-ALDH will be important to understand the mechanism of ALDHs in general, as well as help delineate the specific roles of the active site glutamic acid residues.


Assuntos
Aldeído Desidrogenase/metabolismo , Domínio Catalítico , Histidina/metabolismo , Vibrio/enzimologia , Acil Coenzima A/metabolismo , Acilação , Aciltransferases/metabolismo , Aldeído Desidrogenase/genética , Animais , Sítios de Ligação/genética , Domínio Catalítico/genética , Cisteína/metabolismo , Ativação Enzimática/genética , Esterases/metabolismo , Etilmaleimida/farmacologia , Histidina/genética , Cinética , Família Multigênica , Mutagênese Sítio-Dirigida , NADP/metabolismo , Niacinamida/metabolismo , Ratos , Homologia de Sequência de Aminoácidos , Tioléster Hidrolases/metabolismo , Vibrio/genética
8.
EMBO J ; 19(16): 4204-15, 2000 Aug 15.
Artigo em Inglês | MEDLINE | ID: mdl-10944103

RESUMO

The structure of L-amino acid oxidase (LAAO) from Calloselasma rhodostoma has been determined to 2.0 A resolution in the presence of two ligands: citrate and o-aminobenzoate (AB). The protomer consists of three domains: an FAD-binding domain, a substrate-binding domain and a helical domain. The interface between the substrate-binding and helical domains forms a 25 A long funnel, which provides access to the active site. Three AB molecules are visible within the funnel of the LAAO-AB complex; their orientations suggest the trajectory of the substrate to the active site. The innermost AB molecule makes hydrogen bond contacts with the active site residues, Arg90 and Gly464, and the aromatic portion of the ligand is situated in a hydrophobic pocket. These contacts are proposed to mimic those of the natural substrate. Comparison of LAAO with the structure of mammalian D-amino acid oxidase reveals significant differences in their modes of substrate entry. Furthermore, a mirror-symmetrical relationship between the two substrate-binding sites is observed which facilitates enantiomeric selectivity while preserving a common arrangement of the atoms involved in catalysis.


Assuntos
Aminoácido Oxirredutases/química , Animais , Sítios de Ligação , Catálise , Ácido Cítrico/química , Ácido Cítrico/metabolismo , Sequência Conservada , Venenos de Crotalídeos , Cristalografia por Raios X , D-Aminoácido Oxidase/química , Elétrons , Flavina-Adenina Dinucleotídeo/metabolismo , Glicosilação , Ligação de Hidrogênio , Concentração de Íons de Hidrogênio , L-Aminoácido Oxidase , Ligantes , Modelos Químicos , Modelos Moleculares , Estrutura Secundária de Proteína , Estrutura Terciária de Proteína , Suínos , ortoaminobenzoatos/química
9.
Biochem J ; 349 Pt 3: 853-61, 2000 Aug 01.
Artigo em Inglês | MEDLINE | ID: mdl-10903148

RESUMO

Aldehyde dehydrogenase from the bioluminescent bacterium, Vibrio harveyi, catalyses the oxidation of long-chain aliphatic aldehydes to acids. The enzyme is unique compared with other forms of aldehyde dehydrogenase in that it exhibits a very high specificity and affinity for the cofactor NADP(+). Structural studies of this enzyme and comparisons with other forms of aldehyde dehydrogenase provide the basis for understanding the molecular features that dictate these unique properties and will enhance our understanding of the mechanism of catalysis for this class of enzyme. The X-ray structure of aldehyde dehydrogenase from V. harveyi has been solved to 2.5-A resolution as a partial complex with the cofactor NADP(+) and to 2. 1-A resolution as a fully bound 'holo' complex. The cofactor preference exhibited by different forms of the enzyme is predominantly determined by the electrostatic environment surrounding the 2'-hydroxy or the 2'-phosphate groups of the adenosine ribose moiety of NAD(+) or NADP(+), respectively. In the NADP(+)-dependent structures the presence of a threonine and a lysine contribute to the cofactor specificity. In the V. harveyi enzyme an arginine residue (Arg-210) contributes to the high cofactor affinity through a pi stacking interaction with the adenine ring system of the cofactor. Further differences between the V. harveyi enzyme and other aldehyde dehydrogenases are seen in the active site, in particular a histidine residue which is structurally conserved with phosphorylating glyceraldehyde-3-phosphate dehydrogenase. This may suggest an alternative mechanism for activation of the reactive cysteine residue for nucleophilic attack.


Assuntos
Aldeído Desidrogenase/química , NADP/metabolismo , Vibrio/enzimologia , Aldeído Desidrogenase/metabolismo , Cristalografia por Raios X , Conformação Proteica , Especificidade por Substrato
10.
Structure ; 8(1): 35-46, 2000 Jan 15.
Artigo em Inglês | MEDLINE | ID: mdl-10673422

RESUMO

BACKGROUND: The bifunctional enzyme formiminotransferase-cyclodeaminase (FTCD) contains two active sites at different positions on the protein structure. The enzyme binds a gamma-linked polyglutamylated form of the tetrahydrofolate substrate and channels the product of the transferase reaction from the transferase active site to the cyclodeaminase active site. Structural studies of this bifunctional enzyme and its monofunctional domains will provide insight into the mechanism of substrate channeling and the two catalytic reactions. RESULTS: The crystal structure of the formiminotransferase (FT) domain of FTCD has been determined in the presence of a product analog, folinic acid. The overall structure shows that the FT domain comprises two subdomains that adopt a novel alpha/beta fold. Inspection of the folinic acid binding site reveals an electrostatic tunnel traversing the width of the molecule. The distribution of charged residues in the tunnel provides insight into the possible mode of substrate binding and channeling. The electron density reveals that the non-natural stereoisomer, (6R)-folinic acid, binds to the protein; this observation suggests a mechanism for product release. In addition, a single molecule of glycerol is bound to the enzyme and indicates a putative binding site for formiminoglutamate. CONCLUSIONS: The structure of the FT domain in the presence of folinic acid reveals a possible novel mechanism for substrate channeling. The position of the folinic acid and a bound glycerol molecule near to the sidechain of His82 suggests that this residue may act as the catalytic base required for the formiminotransferase mechanism.


Assuntos
Amônia-Liases/química , Amônia-Liases/metabolismo , Domínio Catalítico , Cristalografia por Raios X , Dimerização , Modelos Moleculares , Dobramento de Proteína , Estrutura Quaternária de Proteína , Estrutura Secundária de Proteína , Estrutura Terciária de Proteína , Proteínas Recombinantes/química , Proteínas Recombinantes/metabolismo , Eletricidade Estática , Especificidade por Substrato
11.
Biochemistry ; 38(35): 11440-7, 1999 Aug 31.
Artigo em Inglês | MEDLINE | ID: mdl-10471295

RESUMO

The fatty aldehyde dehydrogenase from the luminescent bacterium, Vibrio harveyi (Vh-ALDH), is unique with respect to its high specificity for NADP(+) over NAD(+). By mutation of a single threonine residue (Thr175) immediately downstream of the beta(B) strand in the Rossmann fold, the nucleotide specificity of Vh-ALDH has been changed from NADP(+) to NAD(+). Replacement of Thr175 by a negatively charged residue (Asp or Glu) resulted in an increase in k(cat)/K(m) for NAD(+) relative to that for NADP(+) of up to 5000-fold due to a decrease for NAD(+) and an increase for NADP(+) in their respective Michaelis constants (K(a)). Differential protection by NAD(+) and NADP(+) against thermal inactivation and comparison of the dissociation constants of NMN, 2'-AMP, 2'5'-ADP, and 5'-AMP for these mutants and the wild-type enzyme clearly support the change in nucleotide specificity. Moreover, replacement of Thr175 with polar residues (N, S, or Q) demonstrated that a more efficient NAD(+)-dependent enzyme T175Q could be created without loss of NADP(+)-dependent activity. Analysis of the three-dimensional structure of Vh-ALDH with bound NADP(+) showed that the hydroxyl group of Thr175 forms a hydrogen bond to the 2'-phosphate of NADP(+). Replacement with glutamic acid or glutamine strengthened interactions with NAD(+) and indicated why threonine would be the preferred polar residue at the nucleotide recognition site in NADP(+)-specific aldehyde dehydrogenases. These results have shown that the size and the structure of the residue at the nucleotide recognition site play the key roles in differentiating between NAD(+) and NADP(+) interactions while the presence of a negative charge is responsible for the decrease in interactions with NADP(+) in Vh-ALDH.


Assuntos
Nucleotídeos de Adenina/farmacologia , Aldeído Desidrogenase/genética , Aldeído Desidrogenase/metabolismo , Mutação Puntual , Vibrio/enzimologia , Difosfato de Adenosina/farmacologia , Monofosfato de Adenosina/farmacologia , Aldeído Desidrogenase/antagonistas & inibidores , Aldeído Desidrogenase/isolamento & purificação , Sequência de Aminoácidos , Catálise , Ativação Enzimática/efeitos dos fármacos , Ativação Enzimática/genética , Inibidores Enzimáticos/farmacologia , Estabilidade Enzimática/genética , Temperatura Alta , Concentração de Íons de Hidrogênio , Cinética , Dados de Sequência Molecular , Mutagênese Sítio-Dirigida , NAD/metabolismo , NADP/metabolismo , Mononucleotídeo de Nicotinamida/farmacologia , Especificidade por Substrato , Vibrio/genética
12.
Arch Biochem Biophys ; 367(1): 95-103, 1999 Jul 01.
Artigo em Inglês | MEDLINE | ID: mdl-10375404

RESUMO

In order to investigate the biochemical properties of the mitochondrial outer membrane receptor, hTom20, involved in protein recognition, the cytosolic domain of this receptor was overexpressed and purified to homogeneity. A four-step purification including the purification of thrombin is described as well as an analysis of the function of the highly purified hTom20 protein. The receptor was concentrated and the subsequent aggregation behavior was investigated in order to understand the function of the single cysteine in the cytosolic domain as well as the function of the proposed "glutamine face" for the structure of the protein. It was found that specific dimerization of the cytosolic domain of hTom20 is necessary in order to prevent aggregation of the protein. In addition, the cysteine and the glutamine face are important for the stability of the protein. We propose that the function of the cysteine is to promote dimerization as found in the absence of dithiothreitol.


Assuntos
Cisteína/metabolismo , Glutamina/metabolismo , Membranas Intracelulares/metabolismo , Proteínas de Membrana/metabolismo , Proteínas de Membrana Transportadoras , Mitocôndrias/metabolismo , Receptores de Superfície Celular , Substituição de Aminoácidos , Sítios de Ligação , Cisteína/genética , Citosol/metabolismo , Detergentes/farmacologia , Dimerização , Glutamina/genética , Humanos , Proteínas de Membrana/química , Proteínas de Membrana/genética , Proteínas de Membrana/isolamento & purificação , Proteínas do Complexo de Importação de Proteína Precursora Mitocondrial , Fragmentos de Peptídeos/biossíntese , Fragmentos de Peptídeos/química , Fragmentos de Peptídeos/isolamento & purificação , Fragmentos de Peptídeos/metabolismo , Ligação Proteica/efeitos dos fármacos , Conformação Proteica/efeitos dos fármacos , Dobramento de Proteína , Proteínas Recombinantes de Fusão/biossíntese , Proteínas Recombinantes de Fusão/química , Proteínas Recombinantes de Fusão/isolamento & purificação , Proteínas Recombinantes de Fusão/metabolismo , Substâncias Redutoras/farmacologia , Deleção de Sequência , Termodinâmica , Trombina/metabolismo , Trifluoretanol/farmacologia
13.
Acta Crystallogr D Biol Crystallogr ; 55(Pt 6): 1206-8, 1999 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-10329787

RESUMO

Formiminotransferase-cyclodeaminase (E.C. 2.1.2.5-E.C. 4.3.1.4) is a bifunctional enzyme involved in the histidine-degradation pathway which exhibits specificity for polyglutamylated folate substrates. The first function of the enzyme transfers the formimino group of formiminoglutamate to the N5 position of tetrahydrofolate, while the second function catalyses the cyclodeamination of the formimino group, yielding N5,10-methenyl-tetrahydrofolate, with efficient channeling of the intermediate between these activities. Initial studies have shown that the enzyme consists of eight identical subunits of 62 kDa each, arranged as a circular tetramer of dimers. It is this formation which results in two different dimeric interfaces, which are necessary for the two different activities. The identical subunits have been shown to consist of two domains, each of which can be obtained as dimers. The formiminotransferase domain has been crystallized in the presence of the substrate analogue folinic acid. The crystals belong to space group P212121, with unit-cell dimensions a = 64.4, b = 103.7, c = 122.3 A. Both a native data set and a mercurial derivative data set have been collected to 2.8 A resolution.


Assuntos
Amônia-Liases/química , Amônia-Liases/isolamento & purificação , Cristalização , Cristalografia por Raios X , Conformação Proteica
14.
Biochemistry ; 38(14): 4277-86, 1999 Apr 06.
Artigo em Inglês | MEDLINE | ID: mdl-10194345

RESUMO

Cholesterol oxidase is a monomeric flavoenzyme which catalyzes the oxidation and isomerization of cholesterol to cholest-4-en-3-one. The enzyme interacts with lipid bilayers in order to bind its steroid substrate. The X-ray structure of the enzyme from Brevibacterium sterolicum revealed two loops, comprising residues 78-87 and residues 433-436, which act as a lid over the active site and facilitate binding of the substrate [Vrielink et al. (1991) J. Mol. Biol. 219, 533-554; Li et al. (1993) Biochemistry 32, 11507-11515]. It was postulated that these loops must open, forming a hydrophobic channel between the membrane and the active site of the protein and thus sequestering the cholesterol substrate from the aqueous environment. Here we describe the three-dimensional structure of the homologous enzyme from Streptomyces refined to 1.5 A resolution. Structural comparisons to the enzyme from B. sterolicum reveal significant conformational differences in these loop regions; in particular, a region of the loop comprising residues 78-87 adopts a small amphipathic helical turn with hydrophobic residues directed toward the active site cavity and hydrophilic residues directed toward the external surface of the molecule. It seems reasonable that this increased rigidity reduces the entropy loss that occurs upon binding substrate. Consequently, the Streptomyces enzyme is a more efficient catalyst. In addition, we have determined the structures of three active site mutants which have significantly reduced activity for either the oxidation (His447Asn and His447Gln) or the isomerization (Glu361Gln). Our structural and kinetic data indicate that His447 and Glu361 act as general base catalysts in association with conserved water H2O541 and Asn485. The His447, Glu361, H2O541, and Asn485 hydrogen bond network is conserved among other oxidoreductases. This catalytic tetrad appears to be a structural motif that occurs in flavoenzymes that catalyze the oxidation of unactivated alcohols.


Assuntos
Colesterol Oxidase/química , Colesterol Oxidase/genética , Mutagênese Sítio-Dirigida , Streptomyces/enzimologia , Asparagina/genética , Sítios de Ligação/genética , Cristalografia por Raios X , Flavina-Adenina Dinucleotídeo/química , Ácido Glutâmico/genética , Glutamina/genética , Histidina/genética , Modelos Moleculares , Relação Estrutura-Atividade , Especificidade por Substrato , Água/química
15.
J Biol Chem ; 273(29): 18435-42, 1998 Jul 17.
Artigo em Inglês | MEDLINE | ID: mdl-9660812

RESUMO

The ubiquitin pathway is a major system for selective proteolysis in eukaryotes. However, the mechanisms underlying substrate selectivity by the ubiquitin system remain unclear. We previously identified isoforms of a rat ubiquitin-conjugating enzyme (E2) homologous to the Saccharomyces cerevisiae class I E2 genes, UBC4/UBC5. Two isoforms, although 93% identical, show distinct features. UBC4-1 is expressed ubiquitously, whereas UBC4-testis is expressed in spermatids. Interestingly, although these isoforms interacted similarly with some ubiquitin-protein ligases (E3s) such as E6-AP and rat p100 and an E3 that conjugates ubiquitin to histone H2A, they also supported conjugation of ubiquitin to distinct subsets of testis proteins. UBC4-1 showed an 11-fold greater ability to support conjugation of ubiquitin to endogenous substrates present in a testis nuclear fraction. Site-directed mutagenesis of the UBC4-testis isoform was undertaken to identify regions of the molecule responsible for the observed difference in substrate specificity. Four residues (Gln-15, Ala-49, Ser-107, and Gln-125) scattered on surfaces away from the active site appeared necessary and sufficient for UBC4-1-like conjugation. These four residues identify a large surface of the E2 core domain that may represent an area of binding to E3s or substrates. These findings demonstrate that a limited number of amino acid substitutions in E2s can dictate conjugation of ubiquitin to different proteins and indicate a mechanism by which small E2 molecules can encode a wide range of substrate specificities.


Assuntos
Aminoácidos/metabolismo , Ligases/metabolismo , Proteínas/metabolismo , Proteínas de Saccharomyces cerevisiae , Enzimas de Conjugação de Ubiquitina , Ubiquitinas/metabolismo , Sequência de Aminoácidos , Substituição de Aminoácidos , Aminoácidos/química , Animais , Histonas/metabolismo , Isoenzimas/química , Isoenzimas/metabolismo , Ligases/química , Ligases/genética , Masculino , Dados de Sequência Molecular , Mutagênese Sítio-Dirigida , Proteínas Nucleares/metabolismo , Ratos , Relação Estrutura-Atividade , Propriedades de Superfície , Testículo/enzimologia , Ubiquitinas/química
16.
Biochem Biophys Res Commun ; 238(2): 448-51, 1997 Sep 18.
Artigo em Inglês | MEDLINE | ID: mdl-9299529

RESUMO

The involvement of two conserved glycine residues (Gly229 and Gly234) in activity and nucleotide binding in Vibrio harveyi aldehyde dehydrogenase (ALDH) have been investigated. Each of the glycine residues has been mutated to alanine and the mutant ALDHs have been expressed in Escherichia coli and specifically labelled with [35S]methionine. The G229A mutant was inactive with either NADP+ or NAD+ as coenzyme and did not bind to 2',5'-ADP Sepharose, indicating a complete loss of nucleotide affinity. In contrast, the G234A mutant showed a high affinity for 2',5'-ADP Sepharose. Purified G234A mutant showed similar kinetic properties to the native enzyme including a pre-steady-state burst of NADPH; however, the Michaelis constants for NAD+ and NADP+ were increased by 3- to 9-fold, showing that the mutation had an effect on saturation of the enzyme with NAD(P)+. These data are consistent with the structure for the nucleotide binding domain of Vh.ALDH being similar to that of class 3 or class 2 mammalian ALDHs which differ from the classical nucleotide binding domain found in most dehydrogenases.


Assuntos
Aldeído Desidrogenase/genética , Nucleotídeos/metabolismo , Vibrio/enzimologia , Aldeído Desidrogenase/metabolismo , Sequência de Aminoácidos , Sítios de Ligação/genética , Sequência Conservada , Ativação Enzimática/genética , Escherichia coli/enzimologia , Escherichia coli/genética , Humanos , Dados de Sequência Molecular , Alinhamento de Sequência
17.
FEBS Lett ; 400(2): 247-51, 1997 Jan 03.
Artigo em Inglês | MEDLINE | ID: mdl-9001407

RESUMO

The electron spin echo envelope modulation (ESEEM) technique of pulsed EPR spectroscopy was applied to the anionic semiquinone of the cholesterol oxidase flavin cofactor, formed when the enzyme was photoreduced in the presence of 5-deazariboflavin and EDTA. Fourier transforms of the three-pulse ESEEM spectra showed the presence of 14N nuclei magnetically coupled to the paramagnet. In 2H2O buffer the surroundings of the flavin ring were shown to be accessible to solvent exchange, with a deuterium population in close proximity to the paramagnetic centre. Upon binding of the pseudosubstrate, dehydroisoandrosterone, subtle changes were observed in the coupling to nitrogen nuclei, which are interpreted as changes in the electron density distribution of the flavin ring system. The results are discussed in terms of the three-dimensional structure reported for the protein and the flavin ring architecture.


Assuntos
Proteínas de Bactérias/química , Benzoquinonas/química , Brevibacterium/enzimologia , Colesterol Oxidase/química , Espectroscopia de Ressonância de Spin Eletrônica/métodos , Flavina-Adenina Dinucleotídeo/análogos & derivados , Desidroepiandrosterona/química , Óxido de Deutério/química , Flavina-Adenina Dinucleotídeo/química , Estrutura Molecular
19.
Protein Sci ; 5(10): 2130-2, 1996 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-8897616

RESUMO

Aldehyde dehydrogenase from Vibrio harveyi catalyzes the oxidation of long-chain aliphatic aldehydes to acids. The enzyme is unique among the family of aldehyde dehydrogenases in that it exhibits much higher specificity for the cofactor NADP+ than for NAD+. The sequence of this form of the enzyme varies significantly from the NAD+ dependent forms, suggesting differences in the three-dimensional structure that may be correlated to cofactor specificity. Crystals of the enzyme have been grown both in the presence and absence of NADP+ using the hanging drop vapor diffusion technique. In order to improve crystal size and quality, iterative seeding techniques were employed. The crystals belong to space group P2(1), with unit cell dimensions a = 79.4 A, b = 131.1 A, c = 92.2 A, and beta = 92.4 degrees. Freezing the crystal to 100 K has enabled a complete set of data to be collected using a rotating anode source (lambda = 1.5418 A). The crystals diffract to a minimum d-spacing of 2.6 A resolution. Based on density calculations, two homodimers of molecular weight 110 kDa are estimated to be present in the asymmetric unit. Self-rotation functions show the presence of 3 noncrystallographic twofold symmetry axes.


Assuntos
Aldeído Desidrogenase/química , Proteínas de Bactérias/química , Conformação Proteica , Vibrio/enzimologia , Aldeído Desidrogenase/isolamento & purificação , Proteínas de Bactérias/isolamento & purificação , Cristalização , Cristalografia por Raios X , Peso Molecular , NADP/química
20.
Acta Crystallogr C ; 52 ( Pt 5): 1300-2, 1996 May 15.
Artigo em Inglês | MEDLINE | ID: mdl-8652101

RESUMO

The tripeptide crystallizes as a zwitterion with a protonated histidyl ring and the C-terminus ionized and with five water molecules of hydration (C21H27N5O5(.5)H2O). The tripeptide adopts an all trans extended conformation with the histidine and phenyl rings parallel to one another. The C-terminus coils into a helical conformation. An intramolecular hydrogen bond between the C-terminus and the N delta atom of the histidine ring stabilizes the helical conformation. The principal torsion angles are phi 1 = -67.7 (8), psi 1 = 140.8 (5), omega 1 = 171.0 (6), phi 2 = -156.5 (5), psi 2 = 162.7 (5), omega 2 = 175.0 (5), phi 3 = -96.4 (6), psi T1 = 14.5 (8) and psi T2 = -164.6 (6) degrees [IUPAC-IUB Commission on Biochemical Nomenclature (1970). J. Mol. Biol. 52, 1-17]. The tripeptides are linked in infinite chains through a short intermolecular hydrogen bond between the C-terminal carboxylate group and the protonated histidy1 N epsilone atom.


Assuntos
Oligopeptídeos/química , Oligopeptídeos/metabolismo , Peptidil Dipeptidase A/metabolismo , Sequência de Aminoácidos , Cristalografia por Raios X , Dados de Sequência Molecular , Relação Estrutura-Atividade
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