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1.
Materials (Basel) ; 16(21)2023 Oct 27.
Artigo em Inglês | MEDLINE | ID: mdl-37959487

RESUMO

An NbN coating was produced on AISI 316L steel using reactive DC magnetron sputtering. The effects of oxidation of the NbN coating in air on the microstructure, mechanical properties, corrosion resistance, contact angle and bioactivity were investigated. Phase composition was determined using X-ray diffraction (XRD), the coatings' cross-sectional microstructure and thickness including surface morphology using a scanning electron microscope (SEM), microhardness via the Vickers method, corrosion by means of a potentiodynamic polarisation test in Ringer's solution and bioactivity by observation in an SBF solution, while the contact angle was studied using a goniometer. The NbN coating and the oxidised coating were shown to demonstrate a Ca/P ratio close to that of hydroxyapatite, as well as increased microhardness and corrosion resistance. The best combination of mechanical, corrosion, bioactivity and hydrophilic properties was demonstrated by the air oxidised NbN coating, which featured an orthorhombic Nb2O5 structure in the top, surface layer.

2.
Int J Mol Sci ; 24(16)2023 Aug 14.
Artigo em Inglês | MEDLINE | ID: mdl-37628960

RESUMO

TGF-ß signaling promotes migration, invasion, and distant colonization of cancer cells in advanced metastatic cancers. TGF-ß signaling suppresses the anti-tumor immune response in a tumor microenvironment, allowing sustained tumor growth. TGF-ß plays an important role in normal physiology; thus it is no surprise that the clinical development of effective and safe TGF-ß inhibitors has been hampered due to their high toxicity. We discovered that increased expression of LY6K in cancer cells led to increased TGF-ß signaling and that inhibition of LY6K could lead to reduced TGF-ß signaling and reduced in vivo tumor growth. LY6K is a highly cancer-specific protein, and it is not expressed in normal organs except in the testes. Thus, LY6K is a valid target for developing therapeutic strategies to inhibit TGF-ß signaling in cancer cells. We employed in vitro pull-down assays and molecular dynamics simulations to understand the structural determinants of the TGF-ß receptor complex with LY6K. This combined approach allowed us to identify the critical residues and dynamics of the LY6K interaction with the TGF-ß receptor complex. These data are critical in designing novel drugs for the inhibition of TGF-ß in LY6K expressing cancer, induction of anti-tumor immune response, and inhibition of tumor growth and metastatic spread.


Assuntos
Colículos Inferiores , Segunda Neoplasia Primária , Humanos , Fator de Crescimento Transformador beta , Receptores de Fatores de Crescimento Transformadores beta , Linfócitos , Microambiente Tumoral
3.
Materials (Basel) ; 16(12)2023 Jun 11.
Artigo em Inglês | MEDLINE | ID: mdl-37374495

RESUMO

The purpose of this study was to experimentally determine the abrasion wear properties of ausferritic ductile iron austempered at 250 °C in order to obtain cast iron of class EN-GJS-1400-1. It has been found that such a cast iron grade makes it possible to create structures for material conveyors used for short-distance transport purposes, required to perform in terms of abrasion resistance under extreme conditions. The wear tests addressed in the paper were conducted at a ring-on-ring type of test rig. The test samples were examined under the conditions of slide mating, where the main destructive process was surface microcutting via loose corundum grains. The mass loss of the examined samples was measured as a parameter characteristic of the wear. The volume loss values thus obtained were plotted as a function of initial hardness. Based on these results, it has been found that prolonged heat treatment (of more than 6 h) causes only an insignificant increase in the resistance to abrasive wear.

4.
Cancer Lett ; 558: 216094, 2023 04 01.
Artigo em Inglês | MEDLINE | ID: mdl-36805500

RESUMO

Lymphocyte antigen 6K (LY6K) is a small GPI-linked protein that is normally expressed in testes. Increased expression of LY6K is significantly associated with poor survival outcomes in many solid cancers, including cancers of the breast, ovary, gastrointestinal tract, head and neck, brain, bladder, and lung. LY6K is required for ERK-AKT and TGF-ß pathways in cancer cells and is required for in vivo tumor growth. In this report, we describe a novel role for LY6K in mitosis and cytokinesis through aurora B kinase and its substrate histone H3 signaling axis. Further, we describe the structural basis of the molecular interaction of small molecule NSC243928 with LY6K protein and the disruption of LY6K-aurora B signaling in cell cycle progression due to LY6K-NSC243928 interaction. Overall, disruption of LY6K function via NSC243928 led to failed cytokinesis, multinucleated cells, DNA damage, senescence, and apoptosis of cancer cells. LY6K is not required for vital organ function, thus inhibition of LY6K signaling is an ideal therapeutic approach for hard-to-treat cancers that lack targeted therapy such as triple-negative breast cancer.


Assuntos
Neoplasias , Feminino , Humanos , Antígenos Ly , Aurora Quinase B , Aurora Quinases , Ciclo Celular , Divisão Celular , Linhagem Celular Tumoral , Proteínas Ligadas por GPI , Linfócitos
5.
Bioorg Med Chem ; 79: 117171, 2023 02 01.
Artigo em Inglês | MEDLINE | ID: mdl-36680947

RESUMO

Small molecule NSC243928 binds with LY6K, a potential target for the treatment of triple-negative breast cancer, and induces cancer cell death with an unclear mechanism. We have developed chemical tools to identify the molecular mechanisms of NSC243928-LY6K interaction. Herein, we report on the development and synthesis of biotinylated and fluorophore-tethered derivatives of NSC243928 guided by docking studies and molecular dynamics. Surface plasmon resonance assay indicates that these derivatives retained a direct binding with LY6K protein. Confocal analysis revealed that nitrobenzoxadiazole (NBD) fluorophore tagged NSC243928 is retained in LY6K expressing cancer cells. These novel modified compounds will be employed in future in vitro and in vivo studies to understand the molecular mechanisms of NSC243928 mediated cancer cell death. These studies will pave the path for developing novel targeted therapeutics and understanding any potential side-effects of these treatments for hard-to-treat cancers such as triple-negative breast cancer or other cancers with high expression of LY6K.


Assuntos
Neoplasias de Mama Triplo Negativas , Humanos , Linhagem Celular Tumoral , Neoplasias de Mama Triplo Negativas/tratamento farmacológico
6.
Sci Rep ; 12(1): 9712, 2022 06 11.
Artigo em Inglês | MEDLINE | ID: mdl-35690675

RESUMO

This work presents the results ofa study which concerns the influence of rotating magnetic field (RMF) on the antibacterial performance of commercial pine essential oil. A suspension of essential oil in saline solution and Escherichia coli were exposed to the rotating magnetic Afield (the frequency of electrical current supplied by a RMF generator f = 1-50 Hz; the averaged values of magnetic induction in the cross-section of the RMF generator B = 13.13 to - 19.92 mT, time of exposure t = 160 min, temperature of incubation 37 °C). The chemical composition of pine (Pinus sylvestris L.) essential oil was determined by gas chromatography coupled with mass spectrometry (GC-MS). The main constituents were α-pinene (28.58%), ß-pinene (17.79%), δ-3-carene (14.17%) and limonene (11.58%). The present study indicates the exposition to the RMF, as compared to the unexposed controls causing an increase in the efficacy of antibacterial properties of pine oil. We have shown that rotating magnetic fields (RMF) at a frequency, f, between 25 Hz to and 50 Hz increased the antimicrobial efficiency of oil a concentration lower than 50%.


Assuntos
Anti-Infecciosos , Óleos Voláteis , Pinus , Antibacterianos , Campos Magnéticos , Óleos Voláteis/química , Óleos Voláteis/farmacologia , Pinus/química
7.
RSC Adv ; 12(5): 2751-2758, 2022 Jan 18.
Artigo em Inglês | MEDLINE | ID: mdl-35425331

RESUMO

Organic compounds that can be triggered using light to release CO in biological environments are of significant current interest to probe the role of CO in biology and as potential therapeutics. We recently reported that a 3-hydroxybenzo[g]quinolone (5) can be used as a CO delivery molecule to produce anticancer and potent anti-inflammatory effects. Herein we report mechanistic studies of the visible light-induced CO release reaction of this compound. In wet CH3CN under aerobic conditions, 5 releases 0.90(2) equivalents of CO upon illumination with visible light (419 nm) to give a single depside product. Performing the same reaction under an 18O2 atmosphere results in quantitative incorporation of two labeled oxygen atoms in the depside product. Monitoring via 1H NMR and UV-vis during the illumination of 5 in CH3CN using 419 nm light revealed the substoichiometric formation of a diketone (6) in the reaction mixture. H2O2 formation was detected in the same reaction mixtures. DFT studies indicate that upon light absorption an efficient pathway exists for the formation of a triplet excited state species (5b) that can undergo reaction with 3O2 resulting in CO release. DFT investigations also provide insight into diketone (6) and H2O2 formation and subsequent reactivity. The presence of water and exposure to visible light play an important role in lowering activation barriers in the reaction between 6 and H2O2 to give CO. Overall, two reaction pathways have been identified for CO release from a 3-hydroxybenzo[g]quinolone.

8.
Materials (Basel) ; 14(12)2021 Jun 15.
Artigo em Inglês | MEDLINE | ID: mdl-34204012

RESUMO

AISI 316L steel was subjected to active screen plasma nitriding and nitrocarburising. The processes were carried out at 440 °C for 6 h. The nitriding process employed an atmosphere of nitrogen and hydrogen, while nitrocarburising was carried out in nitrogen, hydrogen and methane. The processes yielded structures consisting of nitrogen and nitro-carbon expanded austenite, respectively. Microhardness was measured via the Vickers method, surface roughness using an optical profilometer, microstructure by means of light microscopy, while a scanning electron microscope (SEM) served to determine surface topography. Phase composition, lattice parameter and lattice deformation tests were carried out using the X-ray diffraction (XRD) method. Corrosion resistance measurements were performed in a 0.5 M NaCl solution using the potentiodynamic method. The produced layers showed very high resistance to pitting corrosion, while the pitting potential reached 1.5 V, a value that has not yet been recorded in a chloride environment. After the passive layer was broken down, there was a clear deceleration of pitting in the nitrocarburised layer. It was found that in the case of nitro-carbon expanded austenite, pits are formed much slower compared to the nitrogen austenite layer.

9.
Eur Biophys J ; 50(3-4): 571-585, 2021 May.
Artigo em Inglês | MEDLINE | ID: mdl-34021366

RESUMO

We have generated a mutant of C. elegans manganese superoxide dismutase at histidine 30 by site-directed mutagenesis. The structure was solved at a resolution of 1.52 Å by X-ray crystallography (pdb: 6S0D). His30 was targeted, as it forms as a gateway residue at the top of the solvent access funnel to the active site, together with Tyr34. In the wild-type protein, these gateway residues are involved in the hydrogen-bonding network providing the protons necessary for the catalytic reaction at the metal center. However, biophysical characterization and cell viability experiments reveal that a mutation from histidine to asparagine in the H30N mutant modifies metal selectivity in the protein, favoring the uptake of iron over manganese in minimal media conditions, alters active-site coordination from the characteristic trigonal bipyramidal to octahedral geometry, and encourages cellular proliferation in K562 cells, when added exogenously to the cells.


Assuntos
Leucemia , Animais , Asparagina , Sítios de Ligação , Caenorhabditis elegans/metabolismo , Proliferação de Células , Cristalografia por Raios X , Histidina , Humanos , Células K562 , Conformação Proteica , Superóxido Dismutase/genética , Superóxido Dismutase/metabolismo
10.
Biochim Biophys Acta Bioenerg ; 1862(1): 148333, 2021 01 01.
Artigo em Inglês | MEDLINE | ID: mdl-33130026

RESUMO

The present research is a continuation of our work on dissimilatory reduction pathway of sulfate - involved in biogeochemical sulfur turnover. Adenosine 5'-phosphosulfate reductase (APSR) is the second enzyme in the dissimilatory pathway of the sulfate to sulfide reduction. It reversibly catalyzes formation of the sulfite anion (HSO3-) from adenosine 5'-phosphosulfate (APS) - the activated form of sulfate provided by ATP sulfurylase (ATPS). Two electrons required for this redox reaction derive from reduced FAD cofactor, which is suggested to be involved directly in the catalysis by formation of FADH-SO3- intermediate. The present work covers quantum-mechanical (QM) studies on APSR reaction performed for eight models of APSR active site. The cluster models were constructed based on two crystal structures (PDB codes: 2FJA and 2FJB), differing in conformation of Arg317 active site residue. The described results indicated the most feasible mechanism of APSR forward reaction, including formation of FADHN-SO3- adduct (with proton on N5 atom of isoalloxazine), tautomerization of FADHN-SO3- to FADHO-SO3- (with proton on CO moiety of isoalloxazine), and its reductive cleavage to oxidized FAD and sulfite anion. The reverse reaction proceeds in the backward direction. It is suggested that it requires two AMP molecules, one acting as a substrate and another as an inhibitor of forward reaction, which forces change of Arg317 conformation from "arginine in" (2FJA) to "arginine out" (2FJB). Important role of Arg317 in switching the course of the APSR catalytic reaction is revealed by changing the direction of thermodynamic driving force. The presented research also shows the importance of the protonation pattern of the reduced FAD cofactor and protein residues within the active site.


Assuntos
Monofosfato de Adenosina/química , Adenosina Fosfossulfato/química , Proteínas Arqueais/química , Archaeoglobus fulgidus/enzimologia , Monofosfato de Adenosina/metabolismo , Adenosina Fosfossulfato/metabolismo , Proteínas Arqueais/metabolismo , Arginina/química , Arginina/metabolismo , Catálise
11.
Materials (Basel) ; 13(23)2020 Dec 01.
Artigo em Inglês | MEDLINE | ID: mdl-33272001

RESUMO

Harmful lesions occur in the body around multielement stabilisers made of AISI 316 LVM (Low Vacuum Melted) steel, caused by products of pitting, fretting or crevice corrosion. Preventing the effect is possible by modifying the surface of the steel implants. Therefore, the goal of the paper is the comparison of the mechanical and physiochemical properties of plates for treating deformations of the anterior chest wall made of AISI 316 LVM steel, subjected to diffusion and sterilisation processes and exposed to Ringer's solution. The surface of the implants was subjected to electrochemical polishing, chemical passivation and, in order to modify their properties, nitrocarburised and nitrided diffusion layers were created on selected stabilisers under glow discharge conditions with the use of an active screen at a temperature of 420 °C, over 60 min. The conducted studies involved the examination of the microstructure of the formed layers, surface roughness testing, analysis of contact angles and surface free energy, examination of resistance to pitting and crevice corrosion and examination of nanohardness. On the basis of the results of the conducted studies, it was established that the most advantageous set of properties after sterilisation and exposure to Ringer's solution was displayed by implants with a formed diffusion nitrocarburised layer.

12.
Comput Struct Biotechnol J ; 17: 770-784, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-31312415

RESUMO

ATPS Sulfurylase (ATPS) is the first of three enzymes in the sulfate reduction pathway - one of the oldest metabolic pathways on Earth, utilized by Sulfate Reducing Bacteria (SRB). Due to the low redox potential of the sulfate ion, its reduction requires activation via formation of adenosine 5'-phosphosulfate (APS), which is catalyzed by ATPS. Dispersion-corrected hybrid density functional theory (DFT/B3LYP-D3) was used to test three reaction mechanisms proposed for conversion of ATP to APS: two-step SN-1 reaction running through AMP anhydride intermediate, two-step reaction involving cyclic AMP intermediate and direct SN-2 conversion of ATP to APS molecule. The study employed five different cluster models of the ATPS active site: one containing magnesium cation and four without it, constructed based on the crystal structure (PDB code: 1G8H) solved for ATPS from Saccharomyces cerevisiae in complex with APS and pyrophosphate (PPi), where Mg2+ was not detected. The model with magnesium ion was constructed based on the representative structure obtained from trajectory analysis of the molecular dynamics simulations (MD) performed for the hexameric ATPS-APS-Mg2+-PPi complex. The results obtained for all considered models suggest that ATPS-AMP anhydride intermediate is a highly energetic and unstable complex, while formation of cyclic AMP molecule requires formation of unfavorable hypervalent geometry at the transition state. Among all tested mechanism, the energetically most feasible mechanism of the ATPS reaction is SN-2 one-step conversion of ATP to APS occurring via a pentavalent transition state. Interestingly, such a reaction is inhibited by the presence of Mg2+ in the ATPS active site. Magnesium cation forces unfavorable geometry of reactants for SN-2 mechanism and formation of pentavalent transition state. Such a reaction requires rearrangement of Mg2+ ligands, which raises the barrier from 11-14 kcal/mol for the models without Mg2+ to 48 kcal/mol for model with magnesium ion included.

13.
Insect Biochem Mol Biol ; 107: 19-30, 2019 04.
Artigo em Inglês | MEDLINE | ID: mdl-30529144

RESUMO

Genome analyses of the polyphagous spider mite herbivore Tetranychus urticae (two-spotted spider mite) revealed the presence of a set of 17 genes that code for secreted proteins belonging to the "intradiol dioxygenase-like" subgroup. Phylogenetic analyses indicate that this novel enzyme family has been acquired by horizontal gene transfer. In order to better understand the role of these proteins in T. urticae, we have structurally and functionally characterized one paralog (tetur07g02040). It was demonstrated that this protein is indeed an intradiol ring-cleavage dioxygenase, as the enzyme is able to cleave catechol between two hydroxyl-groups using atmospheric dioxygen. The enzyme was characterized functionally and structurally. The active site of the T. urticae enzyme contains an Fe3+ cofactor that is coordinated by two histidine and two tyrosine residues, an arrangement that is similar to those observed in bacterial homologs. However, the active site is significantly more solvent exposed than in bacterial proteins. Moreover, the mite enzyme is monomeric, while almost all structurally characterized bacterial homologs form oligomeric assemblies. Tetur07g02040 is not only the first spider mite dioxygenase that has been characterized at the molecular level, but is also the first structurally characterized intradiol ring-cleavage dioxygenase originating from a eukaryote.


Assuntos
Proteínas de Artrópodes/genética , Dioxigenases/genética , Transferência Genética Horizontal , Tetranychidae/genética , Animais , Proteínas de Artrópodes/metabolismo , Dioxigenases/metabolismo , Tetranychidae/metabolismo
14.
Chemistry ; 24(20): 5303-5308, 2018 Apr 06.
Artigo em Inglês | MEDLINE | ID: mdl-29178484

RESUMO

We have generated a site-directed mutant of the manganese superoxide dismutase SOD-3 of C.elegans (MnSOD-3) which modifies the metal specificity of the enzyme. While wild-type MnSOD-3 functions with manganese in the active site (3600 U mg-1 of protein) it has little or no activity when iron is incorporated. However, when histidine replaces glutamine 142 in the active site, the enzyme retains 50 % of its activity and becomes cambialistic for its metal cofactor exhibiting very similar specific activity with either manganese or iron.


Assuntos
Ferro/química , Metais/química , Superóxido Dismutase/química , Domínio Catalítico , DNA , Eucariotos , Expressão Gênica , Glutamina/química , Histidina/química , Simulação de Dinâmica Molecular , Mutação , Oxirredução , Ligação Proteica , Conformação Proteica , Sensibilidade e Especificidade , Eletricidade Estática , Superóxido Dismutase/genética
15.
Inorg Chem ; 50(3): 1047-57, 2011 Feb 07.
Artigo em Inglês | MEDLINE | ID: mdl-21222442

RESUMO

The mononuclear nickel(II) enolate complex [(6-Ph(2)TPA)Ni(PhC(O)C(OH)C(O)Ph]ClO(4) (I) was the first reactive model complex for the enzyme/substrate (ES) adduct in nickel(II)-containing acireductone dioxygenases (ARDs) to be reported. In this contribution, the mechanism of its O(2)-dependent aliphatic carbon-carbon bond cleavage reactivity was further investigated. Stopped-flow kinetic studies revealed that the reaction of I with O(2) is second-order overall and is ∼80 times slower at 25 °C than the reaction involving the enolate salt [Me(4)N][PhC(O)C(OH)C(O)Ph]. Computational studies of the reaction of the anion [PhC(O)C(OH)C(O)Ph](-) with O(2) support a hydroperoxide mechanism wherein the first step is a redox process that results in the formation of 1,3-diphenylpropanetrione and HOO(-). Independent experiments indicate that the reaction between 1,3-diphenylpropanetrione and HOO(-) results in oxidative aliphatic carbon-carbon bond cleavage and the formation of benzoic acid, benzoate, and CO:CO(2) (∼12:1). Experiments in the presence of a nickel(II) complex gave a similar product distribution, albeit benzil [PhC(O)C(O)Ph] is also formed, and the CO:CO(2) ratio is ∼1.5:1. The results for the nickel(II)-containing reaction match those found for the reaction of I with O(2) and provide support for a trione/HOO(-) pathway for aliphatic carbon-carbon bond cleavage. Overall, I is a reasonable structural model for the ES adduct formed in the active site of Ni(II)ARD. However, the presence of phenyl appendages at both C(1) and C(3) in the [PhC(O)C(OH)C(O)Ph](-) anion results in a reaction pathway for O(2)-dependent aliphatic carbon-carbon bond cleavage (via a trione intermediate) that differs from that accessible to C(1)-H acireductone species. This study, as the first detailed investigation of the O(2) reactivity of a nickel(II) enolate complex of relevance to Ni(II)ARD, provides insight toward understanding the chemical factors involved in the O(2) reactivity of metal acireductone species.


Assuntos
Carbono/química , Níquel/química , Oxigênio/química , Ânions/química , Dioxigenases/química , Peróxido de Hidrogênio/química , Cinética , Estrutura Molecular , Especificidade por Substrato
16.
J Biol Inorg Chem ; 13(6): 929-40, 2008 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-18458966

RESUMO

Homoprotocatechuate (HPCA) dioxygenases are enzymes that take part in the catabolism of aromatic compounds in the environment. They use molecular oxygen to perform the ring cleavage of ortho-dihydroxylated aromatic compounds. A theoretical investigation of the catalytic cycle for HPCA 2,3-dioxygenase isolated from Brevibacterium fuscum (Bf 2,3-HPCD) was performed using hybrid DFT with the B3LYP functional, and a reaction mechanism is suggested. Models of different sizes were built from the crystal structure of the enzyme and were used in the search for intermediates and transition states. It was found that the enzyme follows a reaction pathway similar to that for other non-heme iron dioxygenases, and for the manganese-dependent analog MndD, although with different energetics. The computational results suggest that the rate-limiting step for the whole reaction of Bf 2,3-HPCD is the protonation of the activated oxygen, with an energy barrier of 17.4 kcal/mol, in good agreement with the experimental value of 16 kcal/mol obtained from the overall rate of the reaction. Surprisingly, a very low barrier was found for the O-O bond cleavage step, 11.3 kcal/mol, as compared to 21.8 kcal/mol for MndD (sextet spin state). This result motivated additional studies of the manganese-dependent enzyme. Different spin coupling between the unpaired electrons on the metal and on the evolving substrate radical was observed for the two enzymes, and therefore the quartet spin state potential energy surface of the MndD reaction was studied. The calculations show a crossing between the sextet and the quartet surfaces, and it was concluded that a spin transition occurs and determines a barrier of 14.4 kcal/mol for the O-O bond cleavage, which is found to be the rate-limiting step in MndD. Thus the two 83% identical enzymes, using different metal ions as co-factors, were found to have similar activation energies (in agreement with experiment), but different rate-limiting steps.


Assuntos
Ácido 3,4-Di-Hidroxifenilacético/química , Dioxigenases/química , Ferro/química , Manganês/química , Modelos Químicos , Teoria Quântica , Ácido Sórbico/análogos & derivados , Brevibacterium/enzimologia , Catálise , Simulação por Computador , Cristalografia por Raios X , Modelos Moleculares , Estrutura Molecular , Oxigênio/química , Ácido Sórbico/síntese química , Estereoisomerismo
17.
Chemistry ; 14(7): 2264-76, 2008.
Artigo em Inglês | MEDLINE | ID: mdl-18181127

RESUMO

The mechanism of the oxidative cleavage catalyzed by apocarotenoid oxygenase (ACO) was studied by using a quantum chemical (DFT: B3 LYP) method. Based on the available crystal structure, relatively large models of the unusual active-site region, in which a ferrous ion is coordinated by four histidines and no negatively charged ligand, were selected and used in the computational investigation of the reaction mechanism. The results suggest that binding of dioxygen to the ferrous ion in the active site promotes one-electron oxidation of carotenoid leading to a substrate radical cation and a Fe-bound superoxide radical. Recombination of the two radicals, which can be realized in at least two different ways, yields a reactive peroxo species that subsequently evolves into either a dioxetane or an epoxide intermediate. The former easily decays into the final aldehyde products, whereas the oxidation of the epoxide to the proper products of the reaction requires involvement of a water molecule. The calculated activation barriers favor the dioxetane mechanism, yet the mechanism involving the epoxide intermediate cannot be ruled out.


Assuntos
Carotenoides/química , Simulação por Computador , Modelos Químicos , Oxigenases/química , Sítios de Ligação , Cristalografia por Raios X , Compostos de Epóxi/química , Éteres Cíclicos/química , Modelos Moleculares , Estrutura Molecular , Oxigênio/química , Teoria Quântica
18.
J Am Chem Soc ; 128(39): 12941-53, 2006 Oct 04.
Artigo em Inglês | MEDLINE | ID: mdl-17002391

RESUMO

The mechanism of the catalytic reaction of protocatechuate 3,4-dioxygenase (3,4-PCD), a representative intradiol dioxygenase, was studied with the hybrid density functional method B3LYP. First, a smaller model involving only the iron first-shell ligands (His460, His462, and Tyr408) and the substrates (catechol and dioxygen) was used to probe various a priori plausible reaction mechanisms. Then, an extended model involving also the most important second-shell groups (Arg457, Gln477, and Tyr479) was used for the refinement of the preselected mechanisms. The computational results suggest that the chemical reactions constituting the catalytic cycle of intradiol dioxygenases involve: (1) binding of the substrate as a dianion, in agreement with experimental suggestions, (2) binding of dioxygen to the metal aided by an electron transfer from the substrate to O(2), (3) formation of a bridging peroxo intermediate and its conformational change, which opens the coordination site trans to His462, (4) binding of a neutral XOH ligand (H(2)O or Tyr447) at the open site, (5) proton transfer from XOH to the neighboring peroxo ligand yielding the hydroperoxo intermediate, (6) a Criegee rearrangement leading to the anhydride intermediate, and (7) hydrolysis of the anhydride to the final acyclic product. One of the most important results obtained is that the Criegee mechanism requires an in-plane orientation of the four atoms (two oxygen and two carbon atoms) mainly involved in the reaction. This orientation yields a good overlap between the two sigma orbitals involved, C-C sigma and O-O sigma, allowing an efficient electron flow between them. Another interesting result is that under some conditions, a homolytic O-O bond cleavage might compete with the Criegee rearrangement. The role of the second-shell residues and the substituent effects are also discussed.


Assuntos
Ferroproteínas não Heme/química , Ferroproteínas não Heme/metabolismo , Protocatecoate-3,4-Dioxigenase/química , Protocatecoate-3,4-Dioxigenase/metabolismo , Anidridos/química , Anidridos/metabolismo , Catecóis/química , Catecóis/metabolismo , Cristalografia por Raios X , Hidrólise , Modelos Moleculares , Oxigênio/química , Oxigênio/metabolismo , Conformação Proteica , Termodinâmica
19.
Chemistry ; 12(34): 8835-46, 2006 Nov 24.
Artigo em Inglês | MEDLINE | ID: mdl-16933342

RESUMO

The reaction catalyzed by the plant enzyme 1-aminocyclopropane-1-carboxylic acid oxidase (ACCO) was investigated by using hybrid density functional theory. ACCO belongs to the non-heme iron(II) enzyme superfamily and carries out the bicarbonate-dependent two-electron oxidation of its substrate ACC (1-aminocyclopropane-1-carboxylic acid) concomitant with the reduction of dioxygen and oxidation of a reducing agent probably ascorbate. The reaction gives ethylene, CO(2), cyanide and two water molecules. A model including the mononuclear iron complex with ACC in the first coordination sphere was used to study the details of O-O bond cleavage and cyclopropane ring opening. Calculations imply that this unusual and complex reaction is triggered by a hydrogen atom abstraction step generating a radical on the amino nitrogen of ACC. Subsequently, cyclopropane ring opening followed by O-O bond heterolysis leads to a very reactive iron(IV)-oxo intermediate, which decomposes to ethylene and cyanoformate with very low energy barriers. The reaction is assisted by bicarbonate located in the second coordination sphere of the metal.


Assuntos
Aminoácido Oxirredutases/metabolismo , Etilenos/biossíntese , Aminoácido Oxirredutases/química , Bicarbonatos/química , Bicarbonatos/metabolismo , Sítios de Ligação , Dióxido de Carbono/química , Dióxido de Carbono/metabolismo , Catálise , Cianetos/química , Cianetos/metabolismo , Ciclopropanos/química , Hidrogênio/química , Ferro/química , Ferro/metabolismo , Matemática , Conformação Molecular , Nitrogênio/química , Oxirredução , Oxigênio/química , Água/química , Água/metabolismo
20.
J Inorg Biochem ; 100(4): 727-43, 2006 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-16513176

RESUMO

Recent theoretical contributions to the elucidation of mechanisms for iron containing enzymes are reviewed. The method used in most of these studies is hybrid density functional theory with the B3LYP functional. Three classes of enzymes are considered, the mononuclear non-heme enzymes, enzymes containing iron dimers, and heme-containing enzymes. Mechanisms for both dioxygen and substrate activations are discussed. The reactions usually go through two half-cycles, where a high-valent intermediate Fe(IV)O species is created in the first half-cycle, and the substrate reactions involving this intermediate occur in the second half-cycle. Similarities between the three classes of enzymes dominate, but significant differences also exist.


Assuntos
Enzimas/química , Proteínas de Ligação ao Ferro/química , Ferro/química , Catálise , Dimerização , Hemeproteínas/química , Hemeproteínas/metabolismo , Ferro/metabolismo , Modelos Moleculares , Ferroproteínas não Heme/química , Oxigênio/química , Oxigênio/metabolismo
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