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1.
World J Microbiol Biotechnol ; 39(6): 165, 2023 Apr 18.
Artigo em Inglês | MEDLINE | ID: mdl-37071336

RESUMO

Corynebacterium glutamicum porphobilinogen synthase (PBGS) is a metal enzyme with a hybrid active site metal binding sequence. In this study, the porphobilinogen synthase gene of C. glutamicum was cloned and heterogeneously expressed in Escherichia coli. C. glutamicum PBGS was purified, and its enzymatic characteristics were analyzed. The results showed that C. glutamicum PBGS is a Zn2+-dependent enzyme, and Mg2+ has allosteric regulation. The allosteric Mg2+ plays a vital role in forming the quaternary structure of C. glutamicum PBGS. Based on the ab initio predictive structure modeling of the enzyme and the molecular docking model of 5-aminolevulinic acid (5-ALA), 11 sites were selected for site-directed mutagenesis. When the hybrid active site metal binding site of C. glutamicum PBGS is converted into a cysteine-rich motif (Zn2+-dependent) or an aspartic acid-rich motif (Mg2+/K+-dependent), the enzyme activity is basically lost. Four residues, D128, C130, D132, and C140, in the metal binding site, were the binding sites of Zn2+ and the active center of the enzyme. The band migration, from the native PAGE, of five variants with mutations in the center of enzyme activity was the same as that of the variant enzymes as purified, individually adding two metal ion chelating agents. Their Zn2+ active center structures were abnormal, and the quaternary structure equilibrium was altered. The destroyed active center affects the construction of its quaternary structure. The quaternary structural balance between octamer and hexamer through dimers was regulated by the allosteric regulation of C. glutamicum PBGS. The enzyme activity was also affected by the change of the active site lid structure and (α ß)8-barrel structure caused by mutation. Structural changes in the variants were analyzed to understand C. glutamicum PBGS better.


Assuntos
Corynebacterium glutamicum , Sintase do Porfobilinogênio , Sintase do Porfobilinogênio/genética , Sintase do Porfobilinogênio/química , Sintase do Porfobilinogênio/metabolismo , Corynebacterium glutamicum/genética , Corynebacterium glutamicum/metabolismo , Simulação de Acoplamento Molecular , Metais , Sítios de Ligação , Ácido Aminolevulínico
2.
Metallomics ; 13(4)2021 04 21.
Artigo em Inglês | MEDLINE | ID: mdl-33791795

RESUMO

Previous studies have shown the porphobilinogen synthase (PBGS) zinc-binding mechanism and its conservation among the living cells. However, the precise molecular interaction of zinc with the active center of the enzyme is unknown. In particular, quantum chemistry techniques within the density functional theory (DFT) framework have been the key methodology to describe metalloproteins, when one is looking for a compromise between accuracy and computational feasibility. Considering this, we used DFT-based models within the molecular fractionation with conjugate caps scheme to evaluate the binding energy features of zinc interacting with the human PBGS. Besides, phylogenetic and clustering analyses were successfully employed in extracting useful information from protein sequences to identify groups of conserved residues that build the ions-binding site. Our results also report a conservative assessment of the relevant amino acids, as well as the benchmark analysis of the calculation models used. The most relevant intermolecular interactions in Zn2+-PBGS are due to the amino acids CYS0122, CYS0124, CYS0132, ASP0169, SER0168, ARG0221, HIS0131, ASP0120, GLY0133, VAL0121, ARG0209, and ARG0174. Among these residues, we highlighted ASP0120, GLY0133, HIS0131, SER0168, and ARG0209 by co-occurring in all clusters generated by unsupervised clustering analysis. On the other hand, the triple cysteines at 2.5 Å from zinc (CYS0122, CYS0124, and CYS0132) have the highest energy attraction and are absent in the taxa Viridiplantae, Sar, Rhodophyta, and some Bacteria. Additionally, the performance of the DFT-based models shows that the processing time-dependence is more associated with the choice of the basis set than the exchange-correlation functional.


Assuntos
Evolução Biológica , Metaloproteínas/química , Metaloproteínas/metabolismo , Sintase do Porfobilinogênio/química , Sintase do Porfobilinogênio/metabolismo , Teoria Quântica , Zinco/metabolismo , Sítios de Ligação , Humanos , Filogenia , Conformação Proteica
3.
Prog Mol Biol Transl Sci ; 169: 85-104, 2020.
Artigo em Inglês | MEDLINE | ID: mdl-31952692

RESUMO

Porphobilinogen synthase (PBGS) is an essential enzyme that catalyzes an early step in heme biosynthesis. An unexpected human PBGS quaternary structure dynamic drove the definition of morpheeins, which are protein multimers that dissociate, change shape, and re-assemble differently with functional consequences. Each PBGS monomer has two domains that can reposition through a hinge motion. Human PBGS exists in an equilibrium among high activity octamer, low activity hexamer, and low mole-fraction dimer in which the hinge motion occurs. The dimer conformation dictates the multimer architecture. An octamer-specific inter-subunit interaction responds to pH, resulting in a pH-dependence to the octamer-hexamer equilibrium. An inborn error of metabolism, ALAD porphyria, is caused by single amino acid substitutions that stabilize the hexamer relative to octamer. Drugs that stabilize the PBGS hexamer result in a drug side effect that can exacerbate porphyria. PBGS is essential for all organisms that require respiration, photosynthesis, or methanogenesis. Consequently, phylogenetic variation in PBGS multimerization equilibria provides insight into how Nature has harnessed oligomeric variation in the control of protein function. The dynamic multimerization of PBGS revealed the morpheein mechanism for allostery, a structural basis for inborn errors of metabolism, a quaternary structure focus for drug discovery and/or drug side effects, and a pathway toward new antibiotics or herbicides. The fortuitous discovery of PBGS quaternary structure dynamics arose from characterization of a low-activity single amino acid variant that dramatically stabilized the hexamer, whose existence had previously gone unnoticed.


Assuntos
Sintase do Porfobilinogênio/química , Sítio Alostérico , Artefatos , Catálise , Desenho de Fármacos , Humanos , Concentração de Íons de Hidrogênio , Modelos Moleculares , Filogenia , Sintase do Porfobilinogênio/deficiência , Sintase do Porfobilinogênio/metabolismo , Porfirias Hepáticas , Isoformas de Proteínas , Multimerização Proteica , Estrutura Quaternária de Proteína
4.
Bioorg Chem ; 91: 103117, 2019 10.
Artigo em Inglês | MEDLINE | ID: mdl-31377385

RESUMO

Porphobilinogen synthase (PBG synthase) gene from Pyrobaculum calidifontis was cloned and expressed in E. coli. The recombinant enzyme was purified as an octamer and was found by mass spectrometry to have a subunit Mr of 37676.59 (calculated, 37676.3). The enzyme showed high thermal stability and retained almost all of its activity after incubation at 70 °C for 16 h in the presence of ß-mercaptoethanol (ß-ME) and zinc chloride. However, in the absence of the latter the enzyme was inactivated after 16 h although it regained full activity in the presence of ß-ME and zinc chloride. The protein contained 4 mol of tightly bound zinc per octamer. Further, 4 mol of low affinity zinc could be incorporated following incubation with exogenous zinc salts. The enzyme was inactivated by incubation with levulinic acid followed by treatment with sodium borohydride. Tryptic digest of the modified enzyme and mass spectrometric analysis showed that Lys257 was the site of modification, which has previously been shown to be the site for the binding of 5-aminolevulinic acid giving rise to the propionate-half of porphobilinogen. P. calidifontis PBG synthase was inactivated by 5-chlorolevulinic acid and the residue modified was shown to be the central cysteine (Cys127) of the zinc-binding cysteine-triad, comprising Cys125, 127, 135. The present results in conjunction with earlier findings on zinc containing PBG synthases, are discussed which advocate that the catalytic role of zinc in the activation of the 5-aminolevulinic acid molecule forming the acetate-half of PBG is possible.


Assuntos
Sintase do Porfobilinogênio/metabolismo , Pyrobaculum/enzimologia , Relação Dose-Resposta a Droga , Ácidos Levulínicos/farmacologia , Estrutura Molecular , Sintase do Porfobilinogênio/antagonistas & inibidores , Sintase do Porfobilinogênio/química , Relação Estrutura-Atividade
5.
Environ Sci Pollut Res Int ; 25(30): 30557-30566, 2018 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-30173384

RESUMO

Mammalian δ-aminolevulinate dehydratase (δ-ALA-D) is a metalloenzyme, which requires Zn(II) and reduced thiol groups for catalytic activity, and is an important molecular target for the widespread environmental toxic metals. The δ-ALA-D inhibition mechanism by metals of Group 10 (Ni, Pd, and Pt) and 11 (Cu, Ag, and Au) of the periodic table has not yet been determined. The objective of this study was to characterize the molecular mechanism of δ-ALA-D inhibition caused by the elements of groups 10 and 11 using in vitro (δ-ALA-D activity from human erythrocytes) and in silico (docking simulations) methods. Our results showed that Ni(II) and Pd(II) caused a small inhibition (~ 10%) of the δ-ALA-D. Pt(II) and Pt(IV) significantly inhibited the enzyme (75% and 44%, respectively), but this inhibition was attenuated by Zn(II) and dithiothreitol (DTT). In group 11, all metals inhibited δ-ALA-D with great potency (~ 70-90%). In the presence of Zn(II) and DTT, the enzyme activity was restored to the control levels. The in silico molecular docking data suggest that the coordination of the ions Pt(II), Pt(IV), Cu(II), Ag(I), and Au(III) with thiolates groups from C135 and C143 residues from the δ-ALA-D active site are crucial to the enzyme inhibition. The results indicate that a possible mechanism of inhibition of δ-ALA-D by these metals may involve the replacement of the Zn(II) from the active site and/or the cysteinyl residue oxidation.


Assuntos
Metais/química , Sintase do Porfobilinogênio/antagonistas & inibidores , Sintase do Porfobilinogênio/metabolismo , Ácido Aminolevulínico , Animais , Ditiotreitol/farmacologia , Eritrócitos/metabolismo , Humanos , Simulação de Acoplamento Molecular , Oxirredução , Sintase do Porfobilinogênio/química
6.
Mol Inform ; 37(4): e1700091, 2018 04.
Artigo em Inglês | MEDLINE | ID: mdl-29106077

RESUMO

Previous studies have shown that the mammalian δ-aminolevulinic acid dehydratase (δ-ALAD) is inhibited by selenides and selenoxides, which can involve thiol oxidation. However, the precise molecular interaction of selenides and selenoxides with the active center of the enzyme is unknown. Here, we try to explain the interaction of selenides and the respective selenoxides with human δ-ALAD by in silico molecular docking. The in silico data indicated that Se atoms of selenoxides have higher electrophilic character than their respective selenides. Further, the presence of oxygen increased the interaction of selenoxides with the δ-ALAD active site by O…Zn coordination. The interaction of S atom from Cys124 with the Se atom indicated the importance of the nucleophilic attack of the enzyme thiolate to the organoselenium molecules. These observations help us to understand the interaction of target proteins with organoselenium compounds.


Assuntos
Simulação de Acoplamento Molecular , Sintase do Porfobilinogênio/química , Compostos de Selênio/farmacologia , Sítios de Ligação , Humanos , Sintase do Porfobilinogênio/antagonistas & inibidores , Sintase do Porfobilinogênio/metabolismo , Ligação Proteica , Compostos de Selênio/química
7.
Acc Chem Res ; 49(11): 2509-2517, 2016 11 15.
Artigo em Inglês | MEDLINE | ID: mdl-27783504

RESUMO

Porphobilinogen synthase (PBGS), also known as 5-aminolevulinate dehydratase, is an essential enzyme in the biosynthesis of all tetrapyrroles, which function in respiration, photosynthesis, and methanogenesis. Throughout evolution, PBGS adapted to a diversity of cellular niches and evolved to use an unusual variety of metal ions both for catalytic function and to control protein multimerization. With regard to the active site, some PBGSs require Zn2+; a subset of those, including human PBGS, contain a constellation of cysteine residues that acts as a sink for the environmental toxin Pb2+. PBGSs that do not require the soft metal ion Zn2+ at the active site instead are suspected of using the hard metal Mg2+. The most unexpected property of the PBGS family of enzymes is a dissociative allosteric mechanism that utilizes an equilibrium of architecturally and functionally distinct protein assemblies. The high-activity assembly is an octamer in which intersubunit interactions modulate active-site lid motion. This octamer can dissociate to dimer, the dimer can undergo a hinge twist, and the twisted dimer can assemble to a low-activity hexamer. The hexamer does not have the intersubunit interactions required to stabilize a closed conformation of the active site lid. PBGS active site chemistry benefits from a closed lid because porphobilinogen biosynthesis includes Schiff base formation, which requires deprotonated lysine amino groups. N-terminal and C-terminal sequence extensions dictate whether a specific species of PBGS can sample the hexameric assembly. The bulk of species (nearly all except animals and yeasts) use Mg2+ as an allosteric activator. Mg2+ functions allosterically by binding to an intersubunit interface that is present in the octamer but absent in the hexamer. This conformational selection allosteric mechanism is purported to be essential to avoid the untimely accumulation of phototoxic chlorophyll precursors in plants. For those PBGSs that do not use the allosteric Mg2+, there is a spatially equivalent arginine-derived guanidium group. Deprotonation of this residue promotes formation of the hexamer and accounts for the basic arm of the bell-shaped pH vs activity profile of human PBGS. A human inborn error of metabolism known as ALAD porphyria is attributed to PBGS variants that favor the hexameric assembly. The existence of one such variant, F12L, which dramatically stabilizes the human PBGS hexamer, allowed crystal structure determination for the hexamer. Without this crystal structure and octameric PBGS structures containing the allosteric Mg2+, it would have been difficult to decipher the structural basis for PBGS allostery. The requirement for multimer dissociation as an intermediate step in PBGS allostery was established by monitoring subunit disproportionation during the turnover-dependent transition of heteromeric PBGS (comprised of human wild type and F12L) from hexamer to octamer. One outcome of these studies was the definition of the dissociative morpheein model of protein allostery. The phylogenetically variable time scales for PBGS multimer interconversion result in atypical kinetic and biophysical behaviors. These behaviors can serve to identify other proteins that use the morpheein model of protein allostery.


Assuntos
Sintase do Porfobilinogênio/química , Bactérias , Domínio Catalítico , Humanos , Cinética , Lisina/química , Plantas , Isoformas de Proteínas , Multimerização Proteica , Estrutura Quaternária de Proteína
8.
Appl Biochem Biotechnol ; 179(3): 444-58, 2016 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-26875086

RESUMO

Microbial 5-aminolevulinic acid (ALA) produced from wastewater is considered as potential renewable energy. However, many hurdles are needed to be overcome such as the regulation of key influencing factors on ALA yield. Biomass and ALA production by Rhodobacter sphaeroides was optimized using response surface methodology. The culturing medium was artificial volatile fatty acids wastewater. Three additives were optimized, namely succinate and glycine that are precursors of ALA biosynthesis, and D-glucose that is an inhibitor of ALA dehydratase. The optimal conditions were achieved by analyzing the response surface plots. Statistical analysis showed that succinate at 8.56 mmol/L, glycine at 5.06 mmol/L, and D-glucose at 7.82 mmol/L were the best conditions. Under these optimal conditions, the highest biomass production and ALA yield of 3.55 g/L and 5.49 mg/g-biomass were achieved. Subsequent verification experiments at optimal values had the maximum biomass production of 3.41 ± 0.002 g/L and ALA yield of 5.78 ± 0.08 mg/g-biomass.


Assuntos
Ácido Aminolevulínico/metabolismo , Biomassa , Ácidos Graxos Voláteis/farmacologia , Ácido Aminolevulínico/química , Ácidos Graxos Voláteis/química , Regulação Bacteriana da Expressão Gênica , Sintase do Porfobilinogênio/química , Rhodobacter sphaeroides/química , Rhodobacter sphaeroides/efeitos dos fármacos , Rhodobacter sphaeroides/crescimento & desenvolvimento , Propriedades de Superfície , Águas Residuárias/química
9.
Curr Top Med Chem ; 13(1): 55-63, 2013.
Artigo em Inglês | MEDLINE | ID: mdl-23409765

RESUMO

The morpheein model of allosteric regulation draws attention to proteins that can exist as an equilibrium of functionally distinct assemblies where: one subunit conformation assembles into one multimer; a different subunit conformation assembles into a different multimer; and the various multimers are in a dynamic equilibrium whose position can be modulated by ligands that bind to a multimer-specific ligand binding site. The case study of porphobilinogen synthase (PBGS) illustrates how such an equilibrium holds lessons for disease mechanisms, drug discovery, understanding drug side effects, and identifying proteins wherein drug discovery efforts might focus on quaternary structure dynamics. The morpheein model of allostery has been proposed as applicable for a wide assortment of disease-associated proteins (Selwood, T., Jaffe, E., (2012) Arch. Bioch. Biophys, 519:131-143). Herein we discuss quaternary structure dynamics aspects to drug discovery for the disease-associated putative morpheeins phenylalanine hydroxylase, HIV integrase, pyruvate kinase, and tumor necrosis factor α. Also highlighted is the quaternary structure equilibrium of transthyretin and successful drug discovery efforts focused on controlling its quaternary structure dynamics.


Assuntos
Drogas em Investigação/farmacologia , Regulação Alostérica , Sítio Alostérico , Descoberta de Drogas , Integrase de HIV/química , Integrase de HIV/metabolismo , Humanos , Ligantes , Simulação de Dinâmica Molecular , Fenilalanina Hidroxilase/química , Fenilalanina Hidroxilase/metabolismo , Sintase do Porfobilinogênio/química , Sintase do Porfobilinogênio/metabolismo , Pré-Albumina/química , Pré-Albumina/metabolismo , Multimerização Proteica , Estrutura Quaternária de Proteína , Piruvato Quinase/química , Piruvato Quinase/metabolismo , Fator de Necrose Tumoral alfa/química , Fator de Necrose Tumoral alfa/metabolismo
10.
J Phys Chem B ; 116(40): 12105-12, 2012 Oct 11.
Artigo em Inglês | MEDLINE | ID: mdl-22974111

RESUMO

Porphobilinogen synthase (PBGS) catalyzes the asymmetric condensation and cyclization of two 5-aminolevulinic acid (5-ALA) substrate molecules to give porphobilinogen (PBG). The chemical step of PBGS is herein revisited using QM/MM (ONIOM) calculations. Two different protonation states and several different mechanisms are considered. Previous mechanisms based on DFT-only calculations are shown unlikely to occur. According to these new calculations, the deprotonation step rather than ring closure is rate-limiting. Both the C-C bond formation first mechanism and the C-N bond formation first mechanism are possible, depending on how the A-site ALA binds to the enzyme. We furthermore propose that future work should focus on the substrate binding step rather than the enzymatic mechanism.


Assuntos
Ácido Aminolevulínico/metabolismo , Sintase do Porfobilinogênio/metabolismo , Teoria Quântica , Ácido Aminolevulínico/química , Biocatálise , Ciclização , Estrutura Molecular , Sintase do Porfobilinogênio/química
11.
Biol Trace Elem Res ; 150(1-3): 264-71, 2012 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-22684513

RESUMO

Lead causes a broad range of adverse effects in humans and animals. The objective was to evaluate the potency of lactobacilli to bind lead in vitro and the protective effects of a selected Lactobacillus plantarum CCFM8661 against lead-induced toxicity in mice. Nine strains of bacteria were used to investigate their binding abilities of lead in vitro, and L. plantarum CCFM8661 was selected for animal experiments because of its excellent lead binding capacity. Both living and dead L. plantarum CCFM8661 were used to treat 90 male Kunming mice during or after the exposure to 1 g/L lead acetate in drinking water. The results showed oral administration of both living and dead L. plantarum CCFM8661 offered a significant protective effect against lead toxicity by recovering blood δ-aminolevulinic acid dehydratase activity, decreasing the lead levels in blood and tissues, and preventing alterations in the levels of glutathione, glutathione peroxidase, malondialdehyde, superoxide dismutase, and reactive oxygen species caused by lead exposure. Moreover, L. plantarum CCFM8661 was more effective when administered consistently during the entire lead exposure, not after the exposure. Our results suggest that L. plantarum CCFM8661 has the potency to provide a dietary strategy against lead toxicity.


Assuntos
Lactobacillus plantarum , Intoxicação por Chumbo/prevenção & controle , Probióticos/uso terapêutico , Animais , Biomarcadores/análise , Biomarcadores/sangue , Biomarcadores/metabolismo , Quelantes/efeitos adversos , Quelantes/metabolismo , Quelantes/uso terapêutico , Terapia por Quelação/efeitos adversos , Temperatura Alta , Lactobacillus plantarum/crescimento & desenvolvimento , Lactobacillus plantarum/metabolismo , Chumbo/análise , Chumbo/sangue , Chumbo/metabolismo , Chumbo/farmacocinética , Intoxicação por Chumbo/dietoterapia , Intoxicação por Chumbo/tratamento farmacológico , Intoxicação por Chumbo/metabolismo , Masculino , Camundongos , Camundongos Endogâmicos , Viabilidade Microbiana , Compostos Organometálicos/administração & dosagem , Estresse Oxidativo , Sintase do Porfobilinogênio/antagonistas & inibidores , Sintase do Porfobilinogênio/sangue , Sintase do Porfobilinogênio/química , Probióticos/efeitos adversos , Probióticos/metabolismo , Distribuição Aleatória , Espécies Reativas de Oxigênio/sangue , Succímero/efeitos adversos , Succímero/metabolismo , Succímero/uso terapêutico , Distribuição Tecidual/efeitos dos fármacos
12.
Chemistry ; 18(7): 2040-50, 2012 Feb 13.
Artigo em Inglês | MEDLINE | ID: mdl-22231489

RESUMO

The toxicity of heavy metals, which is associated with the high affinity of the metals for thiolate rich proteins, constitutes a problem worldwide. However, despite this tremendous toxicity concern, the binding mode of As(III) and Pb(II) to proteins is poorly understood. To clarify the requirements for toxic metal binding to metalloregulatory sensor proteins such as As(III) in ArsR/ArsD and Pb(II) in PbrR or replacing Zn(II) in δ-aminolevulinc acid dehydratase (ALAD), we have employed computational and experimental methods examining the binding of these heavy metals to designed peptide models. The computational results show that the mode of coordination of As(III) and Pb(II) is greatly influenced by the steric bulk within the second coordination environment of the metal. The proposed basis of this selectivity is the large size of the ion and, most important, the influence of the stereochemically active lone pair in hemidirected complexes of the metal ion as being crucial. The experimental data show that switching a bulky leucine layer above the metal binding site by a smaller alanine residue enhances the Pb(II)  binding affinity by a factor of five, thus supporting experimentally the hypothesis of lone pair steric hindrance. These complementary approaches demonstrate the potential importance of a stereochemically active lone pair as a metal recognition mode in proteins and, specifically, how the second coordination sphere environment affects the affinity and selectivity of protein targets by certain toxic ions.


Assuntos
Arsênio/química , Chumbo/química , Modelos Químicos , Sintase do Porfobilinogênio/química , Sequência de Aminoácidos , Bactérias/enzimologia , Metais Pesados , Ressonância Magnética Nuclear Biomolecular , Ligação Proteica , Estereoisomerismo
13.
Arch Biochem Biophys ; 519(2): 144-53, 2012 Mar 15.
Artigo em Inglês | MEDLINE | ID: mdl-22037356

RESUMO

The structural basis for allosteric regulation of porphobilinogen synthase (PBGS) is modulation of a quaternary structure equilibrium between octamer and hexamer (via dimers), which is represented schematically as 8mer ⇔ 2mer ⇔ 2mer∗⇔ 6mer∗. The "∗" represents a reorientation between two domains of each subunit that occurs in the dissociated state because it is sterically forbidden in the larger multimers. Allosteric effectors of PBGS are both intrinsic and extrinsic and are phylogenetically variable. In some species this equilibrium is modulated intrinsically by magnesium which binds at a site specific to the 8mer. In other species this equilibrium is modulated intrinsically by pH with the guanidinium group of an arginine being spatially equivalent to the allosteric magnesium ion. In humans, disease associated variants all shift the equilibrium toward the 6mer∗ relative to wild type. The 6mer∗ has a surface cavity that is not present in the 8mer and is proposed as a small molecule allosteric binding site. In silico and in vitro approaches have revealed species-specific allosteric PBGS inhibitors that stabilize the 6mer∗. Some of these inhibitors are drugs in clinical use leading to the hypothesis that extrinsic allosteric inhibition of human PBGS could be a mechanism for drug side effects.


Assuntos
Sintase do Porfobilinogênio/química , Sintase do Porfobilinogênio/metabolismo , Multimerização Proteica , Regulação Alostérica/efeitos dos fármacos , Sequência de Aminoácidos , Estabilidade Enzimática/efeitos dos fármacos , Humanos , Dados de Sequência Molecular , Multimerização Proteica/efeitos dos fármacos , Estrutura Quaternária de Proteína
14.
Exp Mol Pathol ; 91(2): 485-9, 2011 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-21640720

RESUMO

The proteasome interacts with a large number of proteins which regulate specific cellular functions. The focus of this study is to examine the proteasome interaction with Delta-aminolevulinate dehydratase (ALAD). ALAD is involved in the heme biosynthesis pathway and was co-isolated, with the 20S proteasome using several chromatographic purification steps. The MALDI-TOF mass spectrometry analysis identified this proteasome co-isolated protein as ALAD. When the proteasome was isolated using density-gradient centrifugation, ALAD was also found in the 26S proteasome fractions. It co-isolated with the 20S more than with the 26S proteasome. Furthermore, immunoprecipitated ALAD stained positive with antibodies to proteasome subunits. These results indicate that ALAD might interact with the proteasome. It is possible that ALAD is involved in modulating proteasome activity. When purified proteasomes were incubated with ALAD it was found that ALAD changes proteasome activity in a dose dependent manner. This indicates that ALAD may play a significant role in regulating proteasome activity. The data supports the hypothesis that ALAD, an important enzyme for heme synthesis, is also important as a proteasome interacting protein.


Assuntos
Sintase do Porfobilinogênio/metabolismo , Complexo de Endopeptidases do Proteassoma/metabolismo , Sequência de Aminoácidos , Animais , Cromatografia , Humanos , Imunoprecipitação , Camundongos , Dados de Sequência Molecular , Sintase do Porfobilinogênio/química , Complexo de Endopeptidases do Proteassoma/isolamento & purificação , Ratos
15.
Bioorg Med Chem Lett ; 21(10): 2812-5, 2011 May 15.
Artigo em Inglês | MEDLINE | ID: mdl-21514151

RESUMO

The preparation and the antibacterial activity of alaremycin derivatives such as their CF(3)-derivatives and (R)- and (S)-4-oxo-5-acetylaminohexanoic acid for the porphobilinogen synthase (PBGS), were described. The IC(50) values of the antibacterial activity of the prepared materials for the inhibitor of PBGS, were determined using PBGS assay.


Assuntos
Aminocaproatos/síntese química , Aminocaproatos/farmacologia , Antibacterianos/síntese química , Antibacterianos/farmacologia , Sintase do Porfobilinogênio/antagonistas & inibidores , Pseudomonas/efeitos dos fármacos , Aminocaproatos/química , Antibacterianos/química , Bioensaio , Clorofluorcarbonetos de Metano/química , Concentração Inibidora 50 , Estrutura Molecular , Sintase do Porfobilinogênio/química
16.
ChemMedChem ; 6(6): 1067-73, 2011 Jun 06.
Artigo em Inglês | MEDLINE | ID: mdl-21506274

RESUMO

An in vitro evaluation of the Johns Hopkins Clinical Compound Library demonstrates that certain drugs can alter the quaternary structure of an essential human protein. Human porphobilinogen synthase (HsPBGS) is an essential enzyme involved in heme biosynthesis; it exists as an equilibrium of high-activity octamers, low-activity hexamers, and alternate dimer configurations that dictate the stoichiometry and architecture of further assembly. Decreased HsPBGS activity is implicated in toxicities associated with lead poisoning and 5-aminolevulinate dehydratase (ALAD) porphyria, the latter of which involves hexamer-favoring HsPBGS variants. A medium-throughput native PAGE mobility-shift screen coupled with evaluation of hits as HsPBGS inhibitors revealed 12 drugs that stabilize the HsPBGS hexamer and inhibit HsPBGS activity in vitro. A detailed characterization of these effects is presented. Drug inhibition of HsPBGS in vivo by inducing hexamer formation would constitute an unprecedented mechanism for side effects. We suggest that small-molecule perturbation of quaternary structure equilibria be considered as a general mechanism for drug action and side effects.


Assuntos
Efeitos Colaterais e Reações Adversas Relacionados a Medicamentos , Sintase do Porfobilinogênio/antagonistas & inibidores , Sintase do Porfobilinogênio/metabolismo , Estrutura Quaternária de Proteína/efeitos dos fármacos , Humanos , Sintase do Porfobilinogênio/química , Multimerização Proteica/efeitos dos fármacos
17.
J Biol Chem ; 286(17): 15298-307, 2011 Apr 29.
Artigo em Inglês | MEDLINE | ID: mdl-21383008

RESUMO

Porphobilinogen synthase (PBGS) is essential for heme biosynthesis, but the enzyme of the protozoan parasite Toxoplasma gondii (TgPBGS) differs from that of its human host in several important respects, including subcellular localization, metal ion dependence, and quaternary structural dynamics. We have solved the crystal structure of TgPBGS, which contains an octamer in the crystallographic asymmetric unit. Crystallized in the presence of substrate, each active site contains one molecule of the product porphobilinogen. Unlike prior structures containing a substrate-derived heterocycle directly bound to an active site zinc ion, the product-bound TgPBGS active site contains neither zinc nor magnesium, placing in question the common notion that all PBGS enzymes require an active site metal ion. Unlike human PBGS, the TgPBGS octamer contains magnesium ions at the intersections between pro-octamer dimers, which are presumed to function in allosteric regulation. TgPBGS includes N- and C-terminal regions that differ considerably from previously solved crystal structures. In particular, the C-terminal extension found in all apicomplexan PBGS enzymes forms an intersubunit ß-sheet, stabilizing a pro-octamer dimer and preventing formation of hexamers that can form in human PBGS. The TgPBGS structure suggests strategies for the development of parasite-selective PBGS inhibitors.


Assuntos
Sintase do Porfobilinogênio/química , Porfobilinogênio/química , Toxoplasma/enzimologia , Domínio Catalítico , Cristalografia por Raios X , Humanos , Magnésio , Modelos Moleculares , Porfobilinogênio/metabolismo , Ligação Proteica , Multimerização Proteica , Estrutura Quaternária de Proteína , Estrutura Secundária de Proteína
18.
Amino Acids ; 41(1): 173-80, 2011 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-20354739

RESUMO

The oligomeric state of human porphobilinogen synthase (PBGS) [EC.4.2.1.24] is homooctamer, which consists of conformationally heterogenous subunits in the tertiary structure under air-saturated conditions. When PBGS is activated by reducing agent with zinc ion, a reservoir zinc ion coordinated by Cys(223) is transferred in the active center to be coordinated by Cys(122), Cys(124), and Cys(132) (Sawada et al. in J Biol Inorg Chem 10:199-207, 2005). The latter zinc ion serves as an electrophilic catalysis. In this study, we investigated a conformational change associated with the PBGS activation by reducing agent and zinc ion using analytical ultracentrifugation, negative staining electron microscopy, native PAGE, and enzyme activity staining. The results are in good agreement with our notion that the main component of PBGS is octamer with a few percent of hexamer and that the octamer changes spatial subunit arrangement upon reduction and further addition of zinc ion, accompanying decrease in f/f (0). It is concluded that redox-regulated PBGS activation via cleavage of disulfide bonds among Cys(122), Cys(124), and Cys(132) and coordination with zinc ion is closely linked to change in the oligomeric state.


Assuntos
Sintase do Porfobilinogênio/metabolismo , Zinco/farmacologia , Biocatálise/efeitos dos fármacos , Cisteína/química , Cisteína/metabolismo , Dissulfetos/química , Dissulfetos/metabolismo , Ativação Enzimática/efeitos dos fármacos , Humanos , Íons/química , Íons/farmacologia , Oxirredução/efeitos dos fármacos , Sintase do Porfobilinogênio/química , Multimerização Proteica/efeitos dos fármacos , Proteínas Recombinantes/química , Proteínas Recombinantes/metabolismo , Zinco/química
19.
J Phys Chem B ; 114(50): 16860-70, 2010 Dec 23.
Artigo em Inglês | MEDLINE | ID: mdl-21090799

RESUMO

Porphobilinogen synthase (PBGS) is a key enzyme in heme biosynthesis that catalyzes the formation of porphobilinogen (PBG) from two 5-aminolevulinic acid (5-ALA) molecules via formation of intersubstrate C-N and C-C bonds. The active site consists of several invariant residues, including two lysyl residues (Lys210 and Lys263; yeast numbering) that bind the two substrate moieties as Schiff bases. Based on experimental studies, various reaction mechanisms have been proposed for this enzyme that generally can be classified according to whether the intersubstrate C-C or C-N bond is formed first. However, the detailed catalytic mechanism of PBGS remains unclear. In the present study, we have employed density functional theory methods in combination with chemical models of the two key lysyl residues and two substrate moieties in order to investigate various proposed reaction steps and gain insight into the mechanism of PBGS. Importantly, it is found that mechanisms in which the intersubstrate C-N bond is formed first have a rate-limiting barrier (17.5 kcal/mol) that is lower than those in which the intersubstrate C-C bond is formed first (22.8 kcal/mol).


Assuntos
Sintase do Porfobilinogênio/metabolismo , Ácido Aminolevulínico/química , Ácido Aminolevulínico/metabolismo , Sítios de Ligação , Biocatálise , Domínio Catalítico , Lisina/química , Porfobilinogênio/metabolismo , Sintase do Porfobilinogênio/química , Ligação Proteica , Bases de Schiff/química , Termodinâmica
20.
Artigo em Inglês | MEDLINE | ID: mdl-20823524

RESUMO

5-aminolaevulinic acid dehydratase (ALAD), a crucial enzyme in the biosynthesis of tetrapyrrole, catalyses the condensation of two 5-aminolaevulinic acid (ALA) molecules to form porphobilinogen (PBG). The gene encoding ALAD was amplified from genomic DNA of Bacillus subtilis and the protein was overexpressed in Escherichia coli strain BL21 (DE3). The protein was purified and crystallized with an additional MGSSHHHHHHSSGLVPRGSH- tag at the N-terminus of the target protein. Diffraction-quality single crystals were obtained by the hanging-drop vapour-diffusion method. An X-ray diffraction data set was collected at a resolution of 2.7 A.


Assuntos
Bacillus subtilis/enzimologia , Sintase do Porfobilinogênio/química , Clonagem Molecular , Cristalização , Cristalografia por Raios X , Expressão Gênica , Sintase do Porfobilinogênio/genética , Sintase do Porfobilinogênio/isolamento & purificação
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