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1.
Annu Rev Biochem ; 90: 817-846, 2021 06 20.
Article in English | MEDLINE | ID: mdl-33823652

ABSTRACT

Sulfonates include diverse natural products and anthropogenic chemicals and are widespread in the environment. Many bacteria can degrade sulfonates and obtain sulfur, carbon, and energy for growth, playing important roles in the biogeochemical sulfur cycle. Cleavage of the inert sulfonate C-S bond involves a variety of enzymes, cofactors, and oxygen-dependent and oxygen-independent catalytic mechanisms. Sulfonate degradation by strictly anaerobic bacteria was recently found to involve C-S bond cleavage through O2-sensitive free radical chemistry, catalyzed by glycyl radical enzymes (GREs). The associated discoveries of new enzymes and metabolic pathways for sulfonate metabolism in diverse anaerobic bacteria have enriched our understanding of sulfonate chemistry in the anaerobic biosphere. An anaerobic environment of particular interest is the human gut microbiome, where sulfonate degradation by sulfate- and sulfite-reducing bacteria (SSRB) produces H2S, a process linked to certain chronic diseases and conditions.


Subject(s)
Carbon-Carbon Lyases/metabolism , Gastrointestinal Microbiome/physiology , Sulfonic Acids/metabolism , Acetyltransferases/chemistry , Acetyltransferases/metabolism , Alkanesulfonates/metabolism , Anaerobiosis , Bacteria/metabolism , Carbon-Carbon Lyases/chemistry , Glycine/metabolism , Humans , Hydrogen Sulfide/metabolism , Isethionic Acid/metabolism , Microbiota/physiology , Taurine/metabolism
2.
Gastroenterology ; 164(4): 630-641.e34, 2023 04.
Article in English | MEDLINE | ID: mdl-36623778

ABSTRACT

BACKGROUND & AIMS: The etiology of abdominal pain in postinfectious, diarrhea-predominant irritable bowel syndrome (PI-IBS-D) is unknown, and few treatment options exist. Catechol-O-methyltransferase (COMT), an enzyme that inactivates and degrades biologically active catecholamines, plays an important role in numerous physiologic processes, including modulation of pain perception. Our objective was to determine the mechanism(s) of how decreased colonic COMT in PI-IBS-D patients contributes to the chronic abdominal pain phenotype after enteric infections. METHODS: Colon neurons, epithelial cells, and macrophages were procured with laser capture microdissection from PI-IBS-D patients to evaluate cell-specific colonic COMT, microRNA-155 (miR-155), and tumor necrosis factor (TNF) α expression levels compared to recovered patients (infection cleared: did not develop PI-IBS-D) and control individuals. COMT-/-, colon-specific COMT-/-, and miR-155-/- mice and human colonoids were used to model phenotypic expression of COMT in PI-IBS-D patients and to investigate signaling pathways linking abdominal pain. Citrobacter rodentium and trinitrobenzene sulfonic acid animal models were used to model postinflammatory changes seen in PI-IBS-D patients. RESULTS: Colonic COMT levels were significantly decreased and correlated with increased visual analog scale abdominal pain ratings in PI-IBS-D patients compared to recovered patients and control individuals. Colonic miR-155 and TNF-α were increased in PI-IBS-D patients with diminished colonic COMT. COMT-/- mice had significantly increased expression of miR-155 and TNF-α in both colon tissues and dorsal root ganglia. Introduction of cV1q antibody (anti-TNF-α) into mice reversed visceral hypersensitivity after C rodentium and trinitrobenzene sulfonic acid. CONCLUSIONS: Decreased colonic COMT in PI-IBS-D patients drives abdominal pain phenotypes via the COMT/miR-155/TNF-α axis. These important findings will allow new treatment paradigms and more targeted and personalized medicine approaches for gastrointestinal disorders after enteric infections.


Subject(s)
Irritable Bowel Syndrome , MicroRNAs , Humans , Mice , Animals , Irritable Bowel Syndrome/metabolism , Tumor Necrosis Factor-alpha/metabolism , Catechol O-Methyltransferase/genetics , Catechol O-Methyltransferase/metabolism , Nociception , Tumor Necrosis Factor Inhibitors , Colon/metabolism , Abdominal Pain/genetics , Abdominal Pain/metabolism , MicroRNAs/genetics , MicroRNAs/metabolism , Trinitrobenzenes/metabolism , Sulfonic Acids/metabolism
3.
Prep Biochem Biotechnol ; 54(6): 830-837, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38147976

ABSTRACT

Coprinus comatus is an edible and medicinal fungus. In this study, the antioxidant activity of the fermentation product of C. comatus was investigated through optimization of fermentation process. The results indicated that the fermentation product of C. comatus had obvious scavenging ability for 2,2'-Azino-bis(3-ethylbenzothiazoline)-6-sulphonic acid (ABTS) free radical. The EC50 of the n-butanol extract from the fermentation product on ABTS·+ was 0.65 ± 0.02 mg/mL. On this basis, the liquid fermentation conditions of C. comatus were optimized through single factor and response surface optimization experiments according to the scavenging ability of ABTS·+ to improve the antioxidant capacity of the fermentation product. The results showed that when the 14% of C. comatus was fermented in a culture medium with a C/N ratio of 48:1 for 6 days, the ABTS·+ scavenging ability was the strongest, and the EC50 of n-butanol extract was 0.57 ± 0.01 mg/mL, which was 12.31% higher than the initial activity. This study laid the foundation for the development of C. comatus.


Subject(s)
Antioxidants , Benzothiazoles , Coprinus , Fermentation , Sulfonic Acids , Coprinus/metabolism , Coprinus/chemistry , Antioxidants/chemistry , Sulfonic Acids/metabolism , Benzothiazoles/metabolism , Benzothiazoles/chemistry , Culture Media/chemistry , Free Radical Scavengers/chemistry
4.
J Biol Chem ; 298(10): 102417, 2022 10.
Article in English | MEDLINE | ID: mdl-36037967

ABSTRACT

Γ-Crystallins play a major role in age-related lens transparency. Their destabilization by mutations and physical chemical insults are associated with cataract formation. Therefore, drugs that increase their stability should have anticataract properties. To this end, we screened 2560 Federal Drug Agency-approved drugs and natural compounds for their ability to suppress or worsen H2O2 and/or heat-mediated aggregation of bovine γ-crystallins. The top two drugs, closantel (C), an antihelminthic drug, and gambogic acid (G), a xanthonoid, attenuated thermal-induced protein unfolding and aggregation as shown by turbidimetry fluorescence spectroscopy dynamic light scattering and electron microscopy of human or mouse recombinant crystallins. Furthermore, binding studies using fluorescence inhibition and hydrophobic pocket-binding molecule bis-8-anilino-1-naphthalene sulfonic acid revealed static binding of C and G to hydrophobic sites with medium-to-low affinity. Molecular docking to HγD and other γ-crystallins revealed two binding sites, one in the "NC pocket" (residues 50-150) of HγD and one spanning the "NC tail" (residues 56-61 to 168-174 in the C-terminal domain). Multiple binding sites overlap with those of the protective mini αA-crystallin chaperone MAC peptide. Mechanistic studies using bis-8-anilino-1-naphthalene sulfonic acid as a proxy drug showed that it bound to MAC sites, improved Tm of both H2O2 oxidized and native human gamma D, and suppressed turbidity of oxidized HγD, most likely by trapping exposed hydrophobic sites. The extent to which these drugs act as α-crystallin mimetics and reduce cataract progression remains to be demonstrated. This study provides initial insights into binding properties of C and G to γ-crystallins.


Subject(s)
Biomimetic Materials , Cataract , Lens, Crystalline , Molecular Chaperones , Protein Aggregation, Pathological , Salicylanilides , Xanthones , alpha-Crystallins , gamma-Crystallins , Animals , Cattle , Humans , Mice , alpha-Crystallins/metabolism , Cataract/drug therapy , Cataract/prevention & control , Cataract/genetics , gamma-Crystallins/metabolism , Hydrogen Peroxide/metabolism , Lens, Crystalline/metabolism , Molecular Chaperones/metabolism , Molecular Docking Simulation , Naphthalenes/metabolism , Sulfonic Acids/metabolism , Salicylanilides/chemistry , Salicylanilides/pharmacology , Salicylanilides/therapeutic use , Xanthones/chemistry , Xanthones/pharmacology , Xanthones/therapeutic use , Protein Aggregation, Pathological/drug therapy , Biomimetic Materials/chemistry , Biomimetic Materials/pharmacology , Biomimetic Materials/therapeutic use
5.
J Biol Chem ; 295(12): 4035-4048, 2020 03 20.
Article in English | MEDLINE | ID: mdl-32014993

ABSTRACT

Human milk oligosaccharides (HMOs) promote the development of the neonatal intestinal, immune, and nervous systems and has recently received considerable attention. Here we investigated how the maternal diet affects HMO biosynthesis and how any diet-induced HMO alterations influence the infant gut microbiome and immunity. Using capillary electrophoresis and MS-based analyses, we extracted and measured HMOs from breast milk samples and then correlated their levels with results from validated 24-h diet recall surveys and breast milk fatty acids. We found that fruit intake and unsaturated fatty acids in breast milk were positively correlated with an increased absolute abundance of numerous HMOs, including 16 sulfonated HMOs we identified here in humans for the first time. The diet-derived monosaccharide 5-N-glycolyl-neuraminic acid (Neu5Gc) was unambiguously detected in all samples. To gain insights into the potential impact of Neu5Gc on the infant microbiome, we used a constrained ordination approach and identified correlations between Neu5Gc levels and Bacteroides spp. in infant stool. However, Neu5Gc was not associated with marked changes in infant immune markers, in contrast with sulfonated HMOs, whose expression correlated with suppression of two major Th2 cytokines, IL-10 and IL-13. The findings of our work highlight the importance of maternal diet for HMO biosynthesis and provide as yet unexplored targets for future studies investigating interactions between HMOs and the intestinal microbiome and immunity in infants.


Subject(s)
Gastrointestinal Microbiome/drug effects , Milk, Human/metabolism , Oligosaccharides/pharmacology , Sulfonic Acids/chemistry , Bacteroides/drug effects , Bacteroides/isolation & purification , Carbohydrate Sequence , Diet , Electrophoresis, Capillary , Fatty Acids, Unsaturated/metabolism , Feces/microbiology , Humans , Infant , Infant, Newborn , Interleukin-10/metabolism , Interleukin-13/metabolism , Mass Spectrometry , Neuraminic Acids/chemistry , Neuraminic Acids/metabolism , Neuraminic Acids/pharmacology , Oligosaccharides/analysis , Sulfonic Acids/metabolism , Th2 Cells/cytology , Th2 Cells/drug effects , Th2 Cells/immunology , Th2 Cells/metabolism
6.
Proteins ; 89(7): 745-761, 2021 07.
Article in English | MEDLINE | ID: mdl-33580578

ABSTRACT

Cysteine (Cys) is the most reactive amino acid participating in a wide range of biological functions. In-silico predictions complement the experiments to meet the need of functional characterization. Multiple Cys function prediction algorithm is scarce, in contrast to specific function prediction algorithms. Here we present a deep neural network-based multiple Cys function prediction, available on web-server (DeepCys) (https://deepcys.herokuapp.com/). DeepCys model was trained and tested on two independent datasets curated from protein crystal structures. This prediction method requires three inputs, namely, PDB identifier (ID), chain ID and residue ID for a given Cys and outputs the probabilities of four cysteine functions, namely, disulphide, metal-binding, thioether and sulphenylation and predicts the most probable Cys function. The algorithm exploits the local and global protein properties, like, sequence and secondary structure motifs, buried fractions, microenvironments and protein/enzyme class. DeepCys outperformed most of the multiple and specific Cys function algorithms. This method can predict maximum number of cysteine functions. Moreover, for the first time, explicitly predicts thioether function. This tool was used to elucidate the cysteine functions on domains of unknown functions belonging to cytochrome C oxidase subunit-II like transmembrane domains. Apart from the web-server, a standalone program is also available on GitHub (https://github.com/vam-sin/deepcys).


Subject(s)
Cysteine/chemistry , Deep Learning , Disulfides/chemistry , Electron Transport Complex IV/chemistry , Protein Processing, Post-Translational , Software , Amino Acid Sequence , Cations, Divalent/chemistry , Cations, Divalent/metabolism , Cysteine/metabolism , Disulfides/metabolism , Electron Transport Complex IV/metabolism , Glutathione/chemistry , Glutathione/metabolism , Models, Molecular , Nitroso Compounds/chemistry , Nitroso Compounds/metabolism , Protein Domains , Protein Structure, Secondary , Structure-Activity Relationship , Sulfides/chemistry , Sulfides/metabolism , Sulfinic Acids/chemistry , Sulfinic Acids/metabolism , Sulfonic Acids/chemistry , Sulfonic Acids/metabolism
7.
Cell Biol Int ; 45(3): 536-548, 2021 Mar.
Article in English | MEDLINE | ID: mdl-32052524

ABSTRACT

Laccases are enzymes belonging to the family of blue copper oxidases. Due to their broad substrate specificity, they are widely used in many industrial processes and environmental bioremediations for removal of a large number of pollutants. During last decades, laccases attracted scientific interest also as highly promising enzymes to be used in bioanalytics. The aim of this study is to obtain a highly purified laccase from an efficient fungal producer and to demonstrate the applicability of this enzyme for analytics and bioremediation. To select the best microbial source of laccase, a screening of fungal strains was carried out and the fungus Monilinia fructicola was chosen as a producer of an extracellular enzyme. Optimal cultivation conditions for the highest yield of laccase were established; the enzyme was purified by a column chromatography and partially characterized. Molecular mass of the laccase subunit was determined to be near 35 kDa; the optimal pH ranges for the highest activity and stability are 4.5-5.0 and 3.0-5.0, respectively; the optimal temperature for laccase activity is 30°C. Laccase preparation was successfully used as a biocatalyst in the amperometric biosensor for bisphenol A assay and in the bioreactor for bioremediation of some xenobiotics.


Subject(s)
Ascomycota/enzymology , Extracellular Space/enzymology , Laccase/isolation & purification , Laccase/metabolism , Ascomycota/drug effects , Ascomycota/growth & development , Benzhydryl Compounds/metabolism , Benzothiazoles/metabolism , Biodegradation, Environmental/drug effects , Bioreactors/microbiology , Calibration , Carbon/pharmacology , Diclofenac/metabolism , Electrochemistry , Electrodes , Kinetics , Nitrogen/pharmacology , Phenols/metabolism , Salts/pharmacology , Sulfonic Acids/metabolism , Xenobiotics/metabolism
8.
J Ind Microbiol Biotechnol ; 48(3-4)2021 Jun 04.
Article in English | MEDLINE | ID: mdl-33928358

ABSTRACT

Sulfonamides and sulfamates are a group of organosulfur compounds that contain the signature sulfamoyl structural motif. These compounds were initially only known as synthetic antibacterial drugs but were later also discovered as natural products. Eight highly potent examples have been isolated from actinomycetes to date, illustrating the large biosynthetic repertoire of this bacterial genus. For the biosynthesis of these compounds, several distinct and unique biosynthetic machineries have been discovered, capable to generate the unique S-N bond. For the creation of novel, second generation natural products by biosynthetic engineering efforts, a detailed understanding of the underlying enzyme machinery toward potent structural motifs is crucial. In this review, we aim to summarize the current state of knowledge on sulfonamide and sulfamate biosynthesis. A detailed discussion for the secondary sulfamate ascamycin, the tertiary sulfonamide sulfadixiamycin A, and the secondary sulfonamide SB-203208 is provided and their bioactivities and mode of actions are discussed.


Subject(s)
Actinobacteria/metabolism , Anti-Bacterial Agents/metabolism , Sulfonamides/metabolism , Sulfonic Acids/metabolism , Actinobacteria/chemistry , Actinobacteria/genetics , Anti-Bacterial Agents/chemistry , Biological Products/chemistry , Biological Products/metabolism , Sulfonamides/chemistry , Sulfonic Acids/chemistry
9.
Ecotoxicol Environ Saf ; 208: 111742, 2021 Jan 15.
Article in English | MEDLINE | ID: mdl-33396068

ABSTRACT

The indiscriminate disposal of olsalazine in the environment poses a threat to human health and natural ecosystems because of its cytotoxic and genotoxic nature. In the present study, degradation efficiency of olsalazine by the marine-derived fungus, Aspergillus aculeatus (MT492456) was investigated. Optimization of physicochemical parameters (pH. Temperature, Dry weight) and redox mediators {(2,20-azino-bis(3-ethylbenzothiazoline-6-sulfonic acid) diammonium salt (ABTS), p-Coumaric acid and 1-hydroxybenzotriazole (HOBT)} was achieved with Response Surface Methodology (RSM)-Box-Behnken Design (BBD) resulting in 89.43% removal of olsalazine on 7th day. The second-order polynomial regression model was found to be statistically significant, adequate and fit with p < 0.0001, F value=41.87 and correlation coefficient (R2=0.9826). Biotransformation was enhanced in the redox mediator-laccase systems resulting in 99.5% degradation of olsalazine. The efficiency of ABTS in the removal of olsalazine was more pronounced than HOBT and p-Coumaric acid in the laccase-mediator system. This is attributed to the potent nature of the electron transfer mechanism deployed during oxidation of olsalazine. The pseudo-second-order kinetics revealed that the average half-life (t1/2) and removal rates (k1) increases with increasing concentrations of olsalazine. Michaelis-Menten kinetics affirmed the interaction between laccase and olsalazine under optimized conditions with maximum removal rate, Vmax=111.11 hr-1 and half-saturation constant, Km=1537 mg L-1. At the highest drug concentration (2 mM); 98%, 95% and 93% laccase was remarkably stabilized in the enzyme-drug degradation system by HOBT, ABTS and p-Coumaric acid respectively. This study further revealed that the deactivation of laccase by the redox mediators is adequately compensated with enhanced removal of olsalazine.


Subject(s)
Aminosalicylic Acids/metabolism , Anti-Inflammatory Agents, Non-Steroidal/metabolism , Aspergillus/physiology , Biodegradation, Environmental , Ecosystem , Fungi/metabolism , Humans , Kinetics , Laccase/metabolism , Oxidation-Reduction , Sulfonic Acids/metabolism , Triazoles
10.
Bioorg Med Chem ; 28(23): 115777, 2020 12 01.
Article in English | MEDLINE | ID: mdl-32992253

ABSTRACT

A series of novel triaryl-based sulfamic acid analogs was designed, synthesized and evaluated as inhibitors of human protein tyrosine phosphatase beta (HPTPß). A novel, easy and efficient synthetic method was developed for target compounds, and the activity determination results showed that most of compounds were good HPTPß inhibitors. Interestingly, the compounds G4 and G25 with simple structure not only showed potent inhibitory activity on HPTPß but also had good inhibitory selectivity over other PTPs (PTP1B, SHP2, LAR and TC-PTP). The molecular docking simulation of compounds with the protein HPTPß helped us understand the structure-activity relationship and clarify some confusing assay results. This research provides references for further drug design of HPTPß and other PTPs inhibitors.


Subject(s)
Enzyme Inhibitors/chemistry , Receptor-Like Protein Tyrosine Phosphatases, Class 3/antagonists & inhibitors , Sulfonic Acids/chemistry , Benzene Derivatives/chemistry , Binding Sites , Drug Design , Enzyme Inhibitors/metabolism , Humans , Molecular Docking Simulation , Protein Isoforms/antagonists & inhibitors , Protein Isoforms/metabolism , Protein Tyrosine Phosphatases/antagonists & inhibitors , Protein Tyrosine Phosphatases/metabolism , Receptor-Like Protein Tyrosine Phosphatases, Class 3/metabolism , Structure-Activity Relationship , Sulfonic Acids/metabolism
11.
Bioorg Med Chem ; 28(15): 115580, 2020 08 01.
Article in English | MEDLINE | ID: mdl-32631562

ABSTRACT

Antimicrobial resistance is considered as one of the major threats for the near future as the lack of effective treatments for various infections would cause more deaths than cancer by 2050. The development of new antibacterial drugs is considered as one of the cornerstones to tackle this problem. Aminoacyl-tRNA synthetases (aaRSs) are regarded as good targets to establish new therapies. Apart from being essential for cell viability, they are clinically validated. Indeed, mupirocin, an isoleucyl-tRNA synthetase (IleRS) inhibitor, is already commercially available as a topical treatment for MRSA infections. Unfortunately, resistance developed soon after its introduction on the market, hampering its clinical use. Therefore, there is an urgent need for new cellular targets or improved therapies. Follow-up research by Cubist Pharmaceuticals led to a series of selective and in vivo active aminoacyl-sulfamoyl aryltetrazole inhibitors targeting IleRS (e.g. CB 168). Here, we describe the synthesis of new IleRS and TyrRS inhibitors based on the Cubist Pharmaceuticals compounds, whereby the central ribose was substituted for a tetrahydropyran ring. Various linkers were evaluated connecting the six-membered ring with the base-mimicking part of the synthesized analogues. Out of eight novel molecules, a three-atom spacer to the phenyltriazole moiety, which was established using azide-alkyne click chemistry, appeared to be the optimized linker to inhibit IleRS. However, 11 (Ki,app = 88 ± 5.3 nM) and 36a (Ki,app = 114 ± 13.5 nM) did not reach the same level of inhibitory activity as for the known high-affinity natural adenylate-intermediate analogue isoleucyl-sulfamoyl adenosine (IleSA, CB 138; Ki,app = 1.9 ± 4.0 nM) and CB 168, which exhibit a comparable inhibitory activity as the native ligand. Therefore, 11 was docked into the active site of IleRS using a known crystal structure of T. thermophilus in complex with mupirocin. Here, we observed the loss of the crucial 3'- and 4'- hydroxyl group interactions with the target enzyme compared to CB 168 and mupirocin, which we suggest to be the reason for the limited decrease in enzyme affinity. Despite the lack of antibacterial activity, we believe that structurally optimizing these novel analogues via a structure-based approach could ultimately result in aaRS inhibitors which would help to tackle the antibiotic resistance problem.


Subject(s)
Anti-Bacterial Agents/pharmacology , Enzyme Inhibitors/pharmacology , Isoleucine-tRNA Ligase/antagonists & inhibitors , Sulfonic Acids/pharmacology , Triazoles/pharmacology , Tyrosine-tRNA Ligase/antagonists & inhibitors , Anti-Bacterial Agents/chemical synthesis , Anti-Bacterial Agents/metabolism , Bacterial Proteins/antagonists & inhibitors , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Candida/drug effects , Catalytic Domain , Enzyme Inhibitors/chemical synthesis , Enzyme Inhibitors/metabolism , Escherichia coli/drug effects , Isoleucine-tRNA Ligase/chemistry , Isoleucine-tRNA Ligase/metabolism , Microbial Sensitivity Tests , Molecular Docking Simulation , Mycobacterium tuberculosis/drug effects , Protein Binding , Staphylococcus aureus/drug effects , Sulfonic Acids/chemical synthesis , Sulfonic Acids/metabolism , Thermus thermophilus/enzymology , Triazoles/chemical synthesis , Triazoles/metabolism , Tyrosine-tRNA Ligase/chemistry , Tyrosine-tRNA Ligase/metabolism
12.
Biotechnol Appl Biochem ; 67(5): 774-782, 2020 Sep.
Article in English | MEDLINE | ID: mdl-31957059

ABSTRACT

Lignin is the second most abundant polymer after cellulose in lignocellulosic biomass. Its aromatic composition and recalcitrant nature make its valorization a major challenge for obtaining low molecular weight aromatics compounds with high value-added from the enzymatic depolymerization of industrial lignins. The oxidation reaction of lignin polymer using laccases alone remains inefficient. Therefore, researches are focused on the use of a laccase-mediator system (LMS) to facilitate enzymatic depolymerization. Until today, the LMS system was studied using water-soluble lignin only (commercial lignins, modified lignins, or lignin model compounds). This work reports a study of three LMS systems to depolymerize the three major industrial lignins (organosolv lignin, Kraft lignin, and sodium lignosulfonate). We show that an enzymatic depolymerization of these lignins can be achieved by LMS using laccase from Trametes versicolor, 2,2'-azino-bis(3-ethylbenzothiazoline-6-sulfonic acid) diammonium salt as mediator and a cosolvent (25% of 1,4-dioxane) to enhance the solubilization of lignins.


Subject(s)
Laccase/metabolism , Lignin/metabolism , Polyporaceae/enzymology , Biocatalysis , Dioxanes/metabolism , Oxidation-Reduction , Polyporaceae/metabolism , Solubility , Sulfonic Acids/metabolism
13.
Int J Mol Sci ; 21(21)2020 Nov 01.
Article in English | MEDLINE | ID: mdl-33139657

ABSTRACT

Here, we report the synthesis of a quantum dot (QD)-DNA covalent conjugate to be used as an H2O2-free DNAzyme system with oxidase activity. Amino-coupling conjugation was carried out between amino-modified oligonucleotides (CatG4-NH2) and carboxylated quantum dots (CdTe@COOH QDs). The obtained products were characterized by spectroscopic methods (UV-Vis, fluorescence, circular dichroizm (CD), and IR) and the transmission electron microscopy (TEM) technique. A QD-DNA system with a low polydispersity and high stability in aqueous solutions was successfully obtained. The catalytic activity of the QD-DNA conjugate was examined with Amplex Red and ABTS (2,2'-azino-bis(3-ethylbenzothiazoline-6-sulfonate)) indicators using reactive oxygen species (ROS) generated by visible light irradiation. The synthesized QD-DNAzyme exhibited enhanced catalytic activity compared with the reference system (a mixture of QDs and DNAzyme). This proved the assumption that the covalent attachment of DNAzyme to the surface of QD resulted in a beneficial effect on its catalytic activity. The results proved that the QD-DNAzyme system can be used for generation of the signal by light irradiation. The light-induced oxidase activity of the conjugate was demonstrated, proving that the QD-DNAzyme system can be useful for the development of new cellular bioassays, e.g., for the determination of oxygen radical scavengers.


Subject(s)
DNA, Catalytic/metabolism , Oxidoreductases/metabolism , Quantum Dots , Benzothiazoles/chemistry , Benzothiazoles/metabolism , DNA, Catalytic/chemistry , Light , Microscopy, Electron, Transmission , Nanoparticles/chemistry , Nanoparticles/ultrastructure , Oxazines/chemistry , Oxazines/metabolism , Reactive Oxygen Species/metabolism , Reactive Oxygen Species/radiation effects , Spectrum Analysis/methods , Sulfonic Acids/chemistry , Sulfonic Acids/metabolism
14.
Molecules ; 25(21)2020 Nov 06.
Article in English | MEDLINE | ID: mdl-33172141

ABSTRACT

Synthetic anion transporters that facilitate chloride transport are promising candidates for channelopathy treatments. However, most anion transporters exhibit an undesired side effect of facilitating proton transport via interacting with fatty acids present in the membrane. To address the limitation, we here report the use of a new tetrapodal scaffold to maximize the selective interaction with spherical chloride over binding the carboxylate headgroup of fatty acids. One of the new transporters demonstrated a high selectivity for chloride uniport over fatty acid-induced proton transport while being >10 times more active in chloride uniport than strapped calixpyrroles that were previously the only class of compounds known to possess similar selectivity properties.


Subject(s)
Anion Transport Proteins/metabolism , Fatty Acids/metabolism , Anion Transport Proteins/chemistry , Anions/chemistry , Anions/metabolism , Chlorides/chemistry , Chlorides/metabolism , Chromatography, Thin Layer , Crystallography, X-Ray , Fatty Acids/chemistry , Ion Transport , Lipid Bilayers/chemistry , Magnetic Resonance Spectroscopy , Nitrates/metabolism , Pyrenes/chemistry , Pyrenes/metabolism , Sulfonic Acids/chemistry , Sulfonic Acids/metabolism
15.
World J Microbiol Biotechnol ; 36(11): 164, 2020 Sep 30.
Article in English | MEDLINE | ID: mdl-33000328

ABSTRACT

Laccases (EC 1.10.3.2) are multi-copper oxidases that can degrade several xenobiotics, including textile dyes. Present study investigated the nature of laccase isoforms induced by 2,6-dimethylaniline in Cyathus bulleri cultivated on basal salt medium. Two isoforms, LacI and LacII were identified and purified by a combination of ultrafiltration and ion-exchange chromatography. The MS spectrum of the two proteins displayed a number of non-identical and identical molecular peaks (m/z), and, the latter were mapped to protein originating from the previously reported Laccase (Lcc) 1 gene. The LacI isoform exhibited higher catalytic efficiency (Kcat/Km) towards 2,2'-azino-bis (3-ethylbenzothiazoline-6-sulfonic acid), 2,6-dimethoxyphenol, guaiacol and pyrogallol and was tolerant to high levels of chloride ions and resistant to EDTA. Higher decolorization of several dyes such as Direct Scarlet B (67%), Reactive Brilliant blue-R (96%), Direct Orange 34 (50%) and Reactive Red198 (95%) by the LacI isoform makes it a good candidate for degradation of synthetic dyes. The decolorization of Direct Orange 34 by laccases is being reported for the first time. Many of the properties exhibited by this isoform make it a good candidate for large scale production and applications for use in the dyeing industry.


Subject(s)
Coloring Agents/metabolism , Cyathus/metabolism , Laccase/metabolism , Textiles , Amino Acid Sequence , Aniline Compounds/metabolism , Culture Media/chemistry , Hydrogen-Ion Concentration , Oxidoreductases/metabolism , Protein Isoforms/metabolism , Substrate Specificity , Sulfonic Acids/metabolism
16.
J Environ Sci Health B ; 55(12): 1048-1060, 2020.
Article in English | MEDLINE | ID: mdl-32877269

ABSTRACT

The oxidation activity of multicopper-oxidases overlaps with different substrates of laccases and bilirubin oxidases, thus in the present study an integrated approach of bioinformatics using homology modeling, docking, and experimental validation was used to confirm the type of multicopper-oxidase in Myrothecium verrucaria ITCC-8447. The result of peptide sequence of M. verrucaria ITCC-8447 enabled to predict the 3 D-structure of multicopper-oxidase. It was overlapped with the structure of laccase and root mean square deviation (RMSD) was 1.53 Å for 533 and, 171 residues. The low binding energy with azino-bis (3-ethylbenzothiazoline-6-sulfonic acid) (ABTS) (-5.64) as compared to bilirubin (-4.39) suggested that M. verrucaria ITCC-8447 have laccase-like activity. The experimental analysis confirmed high activity with laccase specific substrates, phenol (18.3 U/L), ampyrone (172.4 U/L) and, ampyrone phenol coupling (50 U/L) as compared to bilirubin oxidase substrate bilirubin (16.6 U/L). In addition, lowest binding energy with ABTS (-5.64), syringaldazine SYZ (-4.83), guaiacol GCL (-4.42), and 2,6-dimethoxyphenol DMP (-4.41) confirmed the presence of laccase. Further, complete remediation of two hazardous model pollutants i.e., phenol and resorcinol (1.5 mM) after 12 h of incubation and low binding energy of -4.32 and, -4.85 respectively confirmed its removal by laccase. The results confirmed the presence of laccase in M. verrucaria ITCC-8447 and its effective bioremediation potential.


Subject(s)
Hypocreales/enzymology , Laccase/chemistry , Laccase/metabolism , Oxidoreductases/chemistry , Oxidoreductases/metabolism , Amino Acid Sequence , Ampyrone/metabolism , Benzothiazoles/metabolism , Bilirubin/metabolism , Computer Simulation , Fungal Proteins/chemistry , Fungal Proteins/metabolism , Guaiacol/metabolism , Hydrazones/metabolism , Hydrogen-Ion Concentration , Molecular Docking Simulation , Oxidoreductases Acting on CH-CH Group Donors/chemistry , Oxidoreductases Acting on CH-CH Group Donors/metabolism , Phenol/metabolism , Protein Conformation , Pyrogallol/analogs & derivatives , Pyrogallol/metabolism , Substrate Specificity , Sulfonic Acids/metabolism
17.
J Cell Biochem ; 120(10): 17015-17029, 2019 10.
Article in English | MEDLINE | ID: mdl-31125141

ABSTRACT

Diabetic macular edema, also known as diabetic eye disease, is mainly caused by the overexpression of vascular endothelial protein tyrosine phosphatase (VE-PTP) at hypoxia/ischemic. AKB-9778 is a known VE-PTP inhibitor that can effectively interact with the active site of VE-PTP to inhibit the activity of VE-PTP. However, the binding pattern of VE-PTP with AKB-9778 and the dynamic implications of AKB-9778 on VE-PTP system at the molecular level are poorly understood. Through molecular docking, it was found that the AKB-9778 was docked well in the binding pocket of VE-PTP by the interactions of hydrogen bond and Van der Waals. Furthermore, after molecular dynamic simulations on VE-PTP system and VE-PTP AKB-9778 system, a series of postdynamic analyses found that the flexibility and conformation of the active site undergone an obvious transition after VE-PTP binding with AKB-9778. Moreover, by constructing the RIN, it was found that the different interactions in the active site were the detailed reasons for the conformational differences between these two systems. Thus, the finding here might provide a deeper understanding of AKB-9778 as VE-PTP Inhibitor.


Subject(s)
Aniline Compounds/chemistry , Enzyme Inhibitors/chemistry , Hypoglycemic Agents/chemistry , Molecular Docking Simulation , Receptor-Like Protein Tyrosine Phosphatases, Class 3/chemistry , Sulfonic Acids/chemistry , Amino Acid Motifs , Aniline Compounds/metabolism , Catalytic Domain , Enzyme Inhibitors/metabolism , Humans , Hydrogen Bonding , Hypoglycemic Agents/metabolism , Kinetics , Molecular Dynamics Simulation , Protein Binding , Protein Conformation, alpha-Helical , Protein Conformation, beta-Strand , Protein Interaction Domains and Motifs , Receptor-Like Protein Tyrosine Phosphatases, Class 3/antagonists & inhibitors , Receptor-Like Protein Tyrosine Phosphatases, Class 3/metabolism , Sulfonic Acids/metabolism , Thermodynamics
18.
J Am Chem Soc ; 141(13): 5121-5124, 2019 04 03.
Article in English | MEDLINE | ID: mdl-30869886

ABSTRACT

Malonyl-thioesters are reactive centers of malonyl-CoA and malonyl- S-acyl carrier protein, essential to fatty acid, polyketide and various specialized metabolite biosynthesis. Enzymes that create or use malonyl-thioesters spontaneously hydrolyze or decarboxylate reactants on the crystallographic time frame preventing determination of structure-function relationships. To address this problem, we have synthesized a panel of methylmalonyl-CoA analogs with the carboxylate represented by a sulfonate or nitro and the thioester retained or represented by an ester or amide. Structures of Escherichia coli methylmalonyl-CoA decarboxylase in complex with our analogs affords insight into substrate binding and the catalytic mechanism. Counterintuitively, the negatively charged sulfonate and nitronate functional groups of our analogs bind in an active site hydrophobic pocket. Upon decarboxylation the enolate intermediate is protonated by a histidine preventing CO2-enolate recombination, yielding propionyl-CoA. Activity assays support a histidine catalytic acid and reveal the enzyme displays significant hydrolysis activity. Our structures also provide insight into this hydrolysis activity. Our analogs inhibit decarboxylation/hydrolysis activity with low micromolar Ki values. This study sets precedents for using malonyl-CoA analogs with carboxyate isosteres to study the complicated structure-function relationships of acyl-CoA carboxylases, trans-carboxytransferases, malonyltransferases and ß-ketoacylsynthases.


Subject(s)
Esters/metabolism , Methylmalonyl-CoA Decarboxylase/chemistry , Nitro Compounds/chemistry , Sulfhydryl Compounds/metabolism , Sulfonic Acids/chemistry , Esters/chemistry , Methylmalonyl-CoA Decarboxylase/metabolism , Molecular Structure , Nitro Compounds/metabolism , Stereoisomerism , Sulfhydryl Compounds/chemistry , Sulfonic Acids/metabolism
19.
Biochem Biophys Res Commun ; 518(4): 685-690, 2019 10 22.
Article in English | MEDLINE | ID: mdl-31472963

ABSTRACT

Peroxiredoxins (Prxs) detoxify hydrogen peroxide (H2O2), peroxynitrite, and various organic hydroperoxides. However, the differential oxidative status of Prxs reacted with each peroxide remains unclear. In the present study, we focused on the oxidative alteration of Prxs and demonstrated that, in human red blood cells (RBCs), peroxiredoxin 2 (Prx2) is readily reactive with H2O2, forming disulfide dimers, but was not easily hyperoxidized. In contrast, Prx2 was highly sensitive to the relatively hydrophobic oxidants, such as tert-butyl hydroperoxide (t-BHP) and cumene hydroperoxide. These peroxides hyperoxidized Prx2 into oxidatively damaged forms in RBCs. The t-BHP treatment formed hyperoxidized Prx2 in a dose-dependent manner. When organic hydroperoxide-treated RBC lysates were subjected to reverse-phase high performance liquid chromatography, two peaks derived from hyperoxidized Prx2 appeared along with the decrease of that corresponding to native Prx2. Liquid chromatography-tandem mass spectrometry analysis clearly showed that hyperoxidation to sulfonic acid (-SO3H) at Cys-51 residue was more advanced in a newfound hyperoxidized Prx2 compared to another hydrophobic hyperoxidized form previously identified. These results indicate that irreversible hyperoxidation of the Prx2 monomer in RBCs was easily caused by organic hydroperoxide but not H2O2. Thus, it is important to detect the hyperoxidation of Prx2 into sulfinic or sulfonic acid derivates of Cys-51 because hyperoxidized Prx2 is a potential marker of oxidative injury caused by organic hydroperoxides in human RBCs.


Subject(s)
Erythrocytes/metabolism , Hydrogen Peroxide/metabolism , Peroxides/metabolism , Peroxiredoxins/metabolism , Adult , Chromatography, Reverse-Phase , Cysteine/chemistry , Cysteine/metabolism , Disulfides/chemistry , Disulfides/metabolism , Humans , Hydrogen Peroxide/chemistry , Middle Aged , Oxidants/chemistry , Oxidants/metabolism , Oxidation-Reduction , Peroxides/chemistry , Peroxiredoxins/chemistry , Sulfinic Acids/chemistry , Sulfinic Acids/metabolism , Sulfonic Acids/chemistry , Sulfonic Acids/metabolism , Young Adult , tert-Butylhydroperoxide/chemistry , tert-Butylhydroperoxide/metabolism
20.
J Pharmacol Exp Ther ; 369(3): 389-405, 2019 06.
Article in English | MEDLINE | ID: mdl-30918069

ABSTRACT

Lithocholic acid (LCA) is a bile acid associated with adverse effects, including cholestasis, and it exists in vivo mainly as conjugates known as glyco-LCA (GLCA) and tauro-LCA (TLCA). Tamoxifen has been linked to the development of cholestasis, and it inhibits sulfotransferase 2A1 (SULT2A1)-catalyzed dehydroepiandrosterone (DHEA) sulfonation. The present study was done to characterize the sulfonation of LCA, GLCA, and TLCA and to investigate whether triphenylethylene (clomifene, tamoxifen, toremifene, ospemifene, droloxifene), benzothiophene (raloxifene, arzoxifene), tetrahydronaphthalene (lasofoxifene, nafoxidine), indole (bazedoxifene), and benzopyran (acolbifene) classes of selective estrogen receptor modulator (SERM) inhibit LCA, GLCA, and TLCA sulfonation. Human recombinant SULT2A1, but not SULT2B1b or SULT1E1, catalyzed LCA, GLCA, and TLCA sulfonation, whereas each of these enzymes catalyzed DHEA sulfonation. LCA, GLCA, and TLCA sulfonation is catalyzed by human liver cytosol, and SULT2A1 followed the substrate inhibition model with comparable apparent K m values (≤1 µM). Each of the SERMs inhibited LCA, GLCA, and TLCA sulfonation with varying potency and mode of enzyme inhibition. The potency and extent of inhibition of LCA sulfonation were attenuated or increased by structural modifications to toremifene, bazedoxifene, and lasofoxifene. The inhibitory effect of raloxifene, bazedoxifene, and acolbifene on LCA sulfonation was also observed in HepG2 human hepatocellular carcinoma cells. Overall, among the SERMs investigated, bazedoxifene and raloxifene were the most effective inhibitors of LCA, GLCA, and TLCA sulfonation. These findings provide insight into the structural features of specific SERMs that contribute to their inhibition of SULT2A1-catalyzed LCA sulfonation. Inhibition of LCA, GLCA, and TLCA detoxification by a SERM may provide a biochemical basis for adverse effects associated with a SERM.


Subject(s)
Biocatalysis/drug effects , Lithocholic Acid/analogs & derivatives , Selective Estrogen Receptor Modulators/chemistry , Selective Estrogen Receptor Modulators/pharmacology , Sulfonic Acids/metabolism , Sulfotransferases/metabolism , Taurolithocholic Acid/metabolism , Cytosol/drug effects , Cytosol/metabolism , Hep G2 Cells , Humans , Kinetics , Lithocholic Acid/metabolism , Liver/cytology , Oxidation-Reduction , Selective Estrogen Receptor Modulators/metabolism , Sulfotransferases/antagonists & inhibitors
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