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1.
ACS Synth Biol ; 13(10): 3109-3118, 2024 Oct 18.
Artigo em Inglês | MEDLINE | ID: mdl-39287516

RESUMO

The malachite green aptamer (MGapt) is known for its utility in RNA measurement in vivo and in lysate-based cell-free protein systems. However, MGapt fluorescence dynamics do not accurately reflect RNA concentration. Our study finds that MGapt fluorescence is unstable in commercial PURE systems. We discovered that the chemical composition of the cell-free reaction strongly influences MGapt fluorescence, which leads to inaccurate RNA calculations. Specific to the commercial system, we posit that MGapt fluorescence is significantly affected by the system's chemical properties, governed notably by the presence of dithiothreitol (DTT). We propose a model that, on average, accurately predicts MGapt measurement within a 10% margin, leveraging DTT concentration as a critical factor. This model sheds light on the complex dynamics of MGapt in cell-free systems and underscores the importance of considering environmental factors in RNA measurements using aptamers.


Assuntos
Aptâmeros de Nucleotídeos , Aptâmeros de Nucleotídeos/química , Fluorescência , Corantes de Rosanilina/química , RNA/química , Ditiotreitol/química , Sistema Livre de Células
2.
J Nanobiotechnology ; 22(1): 585, 2024 Sep 28.
Artigo em Inglês | MEDLINE | ID: mdl-39342215

RESUMO

Redox imbalance and oxidative stress are increasingly recognized as significant factors in health disorders such as neurodegenerative disorders, premature aging and cancer. However, detecting antioxidant levels that is crucial for managing oxidative stress, can be challenging due to existing assays' limitations, such as insensitivity to thiol-containing antioxidants. This study presents a simple fluorescence-based assay for antioxidant detection employing the enhanced photocatalytic oxidase-like activity of dithiothreitol (DTT)-assisted bovine serum albumin (BSA)-stabilized gold nanoclusters (DTT@BSA-AuNCs). The reported nanozyme exhibits remarkable stability, versatility, and catalytic activity. Under LED irradiation, DTT@BSA-AuNCs generate singlet oxygen, which converts non-fluorescent thiamine to fluorescent thiochrome, utilizing dissolved oxygen for catalysis. Antioxidants inhibit thiochrome formation, leading to fluorescence quenching. This method enables sensitive detection of antioxidants such as ascorbic acid and glutathione with limits of detection of 0.08 µM and 0.32 µM, respectively, under neutral pH, outperforming previous studies. The assay successfully detects antioxidants in human saliva and cancer cell models. The DTT@BSA-AuNCs-based assay offers a cost-effective, sensitive, and straightforward approach for detecting antioxidants in biological samples, facilitating improved monitoring of oxidative stress in various diseases.


Assuntos
Antioxidantes , Ouro , Nanopartículas Metálicas , Soroalbumina Bovina , Soroalbumina Bovina/química , Humanos , Antioxidantes/química , Antioxidantes/farmacologia , Ouro/química , Nanopartículas Metálicas/química , Catálise , Ditiotreitol/química , Saliva/química , Fluorometria/métodos , Oxirredutases/metabolismo , Oxirredutases/química , Limite de Detecção , Glutationa/química , Glutationa/metabolismo , Ácido Ascórbico/química , Animais , Estresse Oxidativo/efeitos dos fármacos , Oxirredução
3.
Food Chem ; 461: 140938, 2024 Dec 15.
Artigo em Inglês | MEDLINE | ID: mdl-39197323

RESUMO

At present, the combination of fingerprint recognition methods and environmentally friendly and economical analytical instruments is becoming increasingly important in the food industry. Herein, a dithiothreitol (DTT)-functionalized CsPbBr3-based colorimetric sensor array is developed for qualitatively differentiating multiple food oils. In this sensor array composition, two types of iodides (octadecylammonium iodide (ODAI) and ZnI2) are used as recognition elements, and CsPbBr3 is used as a signal probe for the sensor array. Different food oils oxidize iodides differently, resulting in different amounts of remaining iodides. Halogen ion exchange occurs between the remaining iodides and CsPbBr3, leading to different colors observed under ultraviolet light, enabling a unique fingerprint for each food oil. A total of five food oils exhibit their unique colorimetric array's response patterns and were successfully differentiated by linear discriminant analysis (LDA), realizing 100% classification accuracy.


Assuntos
Compostos de Cálcio , Colorimetria , Ditiotreitol , Óxidos , Titânio , Titânio/química , Colorimetria/instrumentação , Óxidos/química , Compostos de Cálcio/química , Ditiotreitol/química , Óleos de Plantas/química , Análise Discriminante
4.
Talanta ; 279: 126589, 2024 Nov 01.
Artigo em Inglês | MEDLINE | ID: mdl-39116730

RESUMO

In this study, we employed the dithiothreitol-based protein equalisation technique and analytical proteomics to better understand myeloma diseases by comparing the proteomes of pellets and supernatants formed upon application of DTT on serum samples. The number of unique proteins found in pellets was 252 for healthy individuals and 223 for multiple myeloma patients. The comparison of these proteomes showed 97 dysregulated proteins. The unique proteins found for supernatants were 264 for healthy individuals and 235 for multiple myeloma patients. The comparison of these proteomes showed 87 dysregulated proteins. The analytical proteomic comparison of both groups of dysregulated proteins is translated into parallel dysregulated pathways, including chaperone-mediated autophagy and protein folding, addressing potential therapeutic interventions. Future research endeavours in personalised medicine should prioritize refining analytical proteomic methodologies using serum dithiothreitol-based protein equalisation to explore innovative therapeutic strategies. We highlight the advanced insights gained from this analytical strategy in studying multiple myeloma, emphasising its complex nature and the critical role of personalised, targeted analytical techniques in enhancing therapeutic efficacy in personalised medicine.


Assuntos
Ditiotreitol , Mieloma Múltiplo , Proteômica , Mieloma Múltiplo/tratamento farmacológico , Mieloma Múltiplo/metabolismo , Humanos , Ditiotreitol/química , Proteômica/métodos , Proteoma/análise , Proteoma/metabolismo
5.
Chemosphere ; 361: 142435, 2024 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-38797213

RESUMO

An alternative metric to account for particulate matter (PM) composition-based toxicity is the ability of PM-species to generate reactive oxygen species (ROS) and deplete antioxidants, the so-called oxidative potential (OP). Acellular OP assays are the most used worldwide, mainly those based on ascorbic acid (AA) and dithiothreitol (DTT) depletion; OP values are calculated from AA/DTT concentration over time kinetic curves. Since a great variability in OP-DTT and OP-AA values can be found in the literature, the understanding of those factors affecting the kinetic rate of AA and DTT oxidation in the presence of PM-bound species will improve the interpretation of OP values. In this work, a kinetic study of the oxidation rate of AA and DTT driven by species usually found in PM (transition metals and naphthoquinone (NQ)) was carried out. In particular, the influence of the concentration of Cu(II), Fe(II), Fe(III), Mn(II), Mn(III), and 1,4-NQ, and the type of fluid used in the assay (phosphate buffer (PB), phosphate buffer saline (PBS) and artificial lysosomal fluid (ALF)) is analysed and discussed. The reaction orders with respect to the AA/DTT and the active compound, and the kinetic rate constants were also determined. The results show great variability in OP values among the studied species depending on the fluid used; the OP values were mostly higher in PB0.05 M, followed by PBS1x and ALF. Moreover, different species concentration-responses for OP-DTT/OP-AA were obtained. These differences were explained by the different reaction orders and kinetic rate constants obtained for each active compound in each fluid.


Assuntos
Ácido Ascórbico , Cobre , Ditiotreitol , Ferro , Manganês , Naftoquinonas , Oxirredução , Cinética , Ácido Ascórbico/química , Naftoquinonas/química , Ditiotreitol/química , Ferro/química , Cobre/química , Manganês/química , Material Particulado/química , Material Particulado/análise , Antioxidantes/química , Espécies Reativas de Oxigênio/metabolismo , Espécies Reativas de Oxigênio/química
6.
Molecules ; 26(21)2021 Nov 06.
Artigo em Inglês | MEDLINE | ID: mdl-34771131

RESUMO

Our studies aimed to explore the protein components of the matrix of human submandibular gland sialoliths. A qualitative analysis was carried out based on the filter aided sample preparation (FASP) methodology. In the protein extraction process, we evaluated the applicability of the standard demineralization step and the use of a lysis buffer containing sodium dodecyl sulfate (SDS) and dithiothreitol (DTT). The analysis of fragmentation spectra based on the human database allowed for the identification of 254 human proteins present in the deposits. In addition, the use of multi-round search in the PEAKS Studio program against the bacterial base allowed for the identification of 393 proteins of bacterial origin present in the extract obtained from sialolith, which so far has not been carried out for this biological material. Furthermore, we successfully applied the SWATH methodology, allowing for a relative quantitative analysis of human proteins present in deposits. The obtained results correlate with the classification of sialoliths proposed by Tretiakow. The performed functional analysis allowed for the first time the selection of proteins, the levels of which differ between the tested samples, which may suggest the role of these proteins in the calcification process in different types of sialoliths. These are preliminary studies, and drawing specific conclusions requires research on a larger group, but it provides us the basis for the continuation of the work that has already begun.


Assuntos
Proteínas/análise , Proteômica , Cálculos das Glândulas Salivares/química , Ditiotreitol/química , Humanos , Cálculos das Glândulas Salivares/diagnóstico , Dodecilsulfato de Sódio/química
7.
Int J Biol Macromol ; 191: 492-499, 2021 Nov 30.
Artigo em Inglês | MEDLINE | ID: mdl-34562536

RESUMO

Wild-type human transthyretin (TTR) is a tetrameric protein that transports thyroxine and retinol in the blood and brain. However, a number of mutations or aging leads to destabilization of the quaternary structure of TTR, which results in dissociation of TTR tetramers to monomers, followed by oligomerization and subsequent amyloid formation. TTR amyloid is a pathogenic factor underlying several diseases. It has recently been documented that destabilization of the structure of TTR is driven by Ca2+. The present work shows that the in vitro redox conditions contribute to the destabilization and formation of the highly unstable substoichiometric population(s) of TTR molecules. Importantly, destabilized TTR forms acquire the ability to emit fluorescence in the blue range of the light spectrum. Dithiothreitol (DTT), in the presence of Ca2+, enhances the formation of complex autofluorophore which displays maxima at 417 nm and 438 nm in the emission spectrum of TTR.


Assuntos
Pré-Albumina/química , Cálcio/química , Ditiotreitol/química , Fluorescência , Humanos , Oxirredução , Multimerização Proteica , Estabilidade Proteica
8.
Indian J Med Microbiol ; 39(2): 179-183, 2021 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-33966858

RESUMO

PURPOSE: The methods used for the processing of periprosthetic tissues and explanted implants to improve culture outcome especially in biofilm mediated prosthetic joint infections (PJIs) are still debated upon. Studies have reported that Dithiothreitol (DTT) pretreatment of infected devices gives similar results as sonication. However, none of them evaluated the DTT treatment of periprosthetic tissues and explanted implants in the same cohort. We evaluated the diagnostic utility of DTT treatment of periprosthetic tissue and explanted implants, as compared to the normal saline treatment of periprosthetic tissues and sonication of explanted implants for the diagnosis of PJI. METHODS: Seventy-three revision arthroplasty cases were prospectively included in this study. Three to five tissue specimens and the explanted implants were collected from each patient. Periprosthetic tissue samples were processed by both normal saline and DTT treatments. Explanted implants were subjected to both DTT treatment and sonication. Musculoskeletal Infection Society (MSIS) PJI criteria was used as the reference standard for the diagnosis of PJI. RESULTS: Of the 73 cases enrolled, 34 had PJI and 39 were aseptic failures. The sensitivity of DTT treated periprosthetic tissue culture (PTC) and saline treated PTC was similar (66.6% vs 58.8%, P = 0.25). The specificity of both was 100%. Sonication and DTT treatment of explanted implants showed comparable sensitivity (85.3% vs 82.4%) and specificity (100% vs 97.4%), P > 0.99. Compared to DTT treated PTC, culture of DTT treated explanted implants significantly improved the diagnosis of PJI (P = 0.03). CONCLUSIONS: We could verify that DTT can be used to improve culture outcome in laboratories where biofilm detaching sonication techniques are not available for infected implants. In addition, we showed that it is possible to use DTT for treating tissue biopsies, but larger studies are required to confirm our findings.


Assuntos
Artrite Infecciosa , Ditiotreitol/química , Infecções Relacionadas à Prótese , Artrite Infecciosa/diagnóstico , Humanos , Infecções Relacionadas à Prótese/diagnóstico , Infecções Relacionadas à Prótese/cirurgia , Solução Salina , Sensibilidade e Especificidade
9.
Int J Mol Sci ; 22(5)2021 Mar 08.
Artigo em Inglês | MEDLINE | ID: mdl-33800175

RESUMO

Using a number of optical techniques (interferometry, dynamic light scattering, and spectroscopy), denaturation of hen egg white lysozyme (HEWL) by treatment with a combination of dithiothreitol (DTT) and guanidine hydrochloride (GdnHCl) has been investigated. The denaturing solutions were selected so that protein denaturation occurred with aggregation (Tris-HCl pH = 8.0, 50 mM, DTT 30 mM) or without aggregation (Tris-HCl pH = 8.0, 50 mM, DTT 30 mM, GdnHCl 6 M) and can be evaluated after 60 min of treatment. It has been found that denatured by solution with 6 M GdnHCl lysozyme completely loses its enzymatic activity after 30 min and the size of the protein molecule increases by 1.5 times, from 3.8 nm to 5.7 nm. Denaturation without of GdnHCl led to aggregation with preserving about 50% of its enzymatic activity. Denaturation of HEWL was examined using interferometry. Previously, it has been shown that protein denaturation that occurs without subsequent aggregation leads to an increase in the refractive index (Δn ~ 4.5 × 10-5). This is most likely due to variations in the HEWL-solvent interface area. By applying modern optical techniques conjointly, it has been possible to obtain information on the nature of time-dependent changes that occur inside a protein and its hydration shell as it undergoes denaturation.


Assuntos
Galinhas , Ditiotreitol/química , Guanidina/química , Muramidase/química , Agregados Proteicos , Desdobramento de Proteína , Animais , Espectrofotometria Ultravioleta
10.
Food Chem ; 354: 129506, 2021 Aug 30.
Artigo em Inglês | MEDLINE | ID: mdl-33744665

RESUMO

Three heat-induced protein aggregates, beta-lactoglobulin fibrils (BLGF), nanoparticles (BLGN), and worm-like aggregates (BLGW) were chosen to probe the effect of disulfide bond and surface hydrophobicity on their gastric digestion behavior. Furthermore, the effect of polysaccharide (dextran sulfate sodium, DSS) on the digestion behavior of the protein aggregates was investigated. Results showed that disulfide bond had a mild restraint on the digestion extent (maximum up to 4.65%), especially when its content was below 1 mol/mol, while the surface hydrophobicity had a stronger influence (up to 8.96%), and there is definitive positive linear relationship between the surface hydrophobicity and the digestion extent. When incorporated with DSS, both the disulfide bond content and surface hydrophobicity of the aggregates decreased, consequently, and the digestion was impeded, confirming the stronger effect from the surface hydrophobicity. The digestion extent of the heat-induced protein aggregates could be modulated linearly by incorporation of polysaccharide.


Assuntos
Sulfato de Dextrana/química , Lactoglobulinas/química , Agregados Proteicos , Digestão , Ditiotreitol/química , Temperatura Alta , Concentração de Íons de Hidrogênio , Interações Hidrofóbicas e Hidrofílicas , Dodecilsulfato de Sódio/química
11.
J Phys Chem Lett ; 12(2): 876-883, 2021 Jan 21.
Artigo em Inglês | MEDLINE | ID: mdl-33428405

RESUMO

Although metal nanoclusters (MNCs) have shown great promise for the further development of photochemical techniques to be applied in diverse areas (e.g., photoelectronic devices, photochemical sensors, photocatalysts, and energy storage and conversion systems), the fundamental problem of their electron transfer behavior still remains unsolved. Herein, a driving force-dependent photoinduced electron transfer process of gold nanoclusters (AuNCs) is clarified for the first time from a rational-designed opposite-charged system. It was found that the electron transfer dynamic of carboxylated chitosan and dithiothreitol-commodified AuNCs (CC/DTT-AuNCs) can be satisfactorily described by the Marcus electron transfer theory. This proved model was applied to estimate the ultrafast charge separation process between CC/DTT-AuNCs and mitoxantrone, which was confirmed by fluorescence quenching and femtosecond transient absorption spectroscopy measurements. We envision that this work will open a new door for understanding the electron transfer behavior of MNCs and facilitate the design of advanced optoelectronic devices.


Assuntos
Ouro/química , Nanopartículas Metálicas/química , Quitosana/química , Ditiotreitol/química , Transporte de Elétrons , Cinética , Tamanho da Partícula , Processos Fotoquímicos , Propriedades de Superfície
12.
Mol Cell Biochem ; 476(3): 1467-1475, 2021 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-33389495

RESUMO

The enzyme betaine aldehyde dehydrogenase (BADH EC 1.2.1.8) catalyzes the synthesis of glycine betaine (GB), an osmolyte and osmoprotectant. Also, it participates in several metabolic pathways in humans. All BADHs known have cysteine in the active site involved in the aldehyde binding, whereas the porcine kidney enzyme (pkBADH) also has a neighborhood cysteine, both sensitive to oxidation. The antineoplastic and immuno-suppressant pre-drug cyclophosphamide (CTX), and its bioactivation products, have two highly oxidating chlorine atoms. This work aimed to analyze the effect of CTX in the activity of porcine kidney betaine aldehyde dehydrogenase. PkBADH was incubated with varying CTX concentration (0 to 2.0 mM) at 25 °C and lost 50 % of its activity with 2.0 mM CTX. The presence of the coenzyme NAD+ (0.5 mM) decreased 95% the activity in 2.0 mM CTX. The substrate betaine aldehyde (0.05 and 0.4 mM, and the products NADH (0.1-0.5 mM) and GB (1 and 10 mM) did not have an effect on the enzyme inactivation by CTX. The reducing agents, dithiothreitol and ß-mercaptoethanol, reverted the pkBADH inactivation, but reduced glutathione (GSH) was unable to restore the enzyme activity. Molecular docking showed that CTX could enter at the enzyme active site, where its chlorine atoms may interact with the catalytic and the neighboring cysteines. The results obtained show that CTX inactivates the pkBADH due to oxidation of the catalytic cysteine or because it oxidizes catalytic and neighborhood cysteine, forming a disulfide bridge with a concomitant decrease in the activity of the enzyme.


Assuntos
Betaína-Aldeído Desidrogenase/metabolismo , Ciclofosfamida/farmacologia , Rim/metabolismo , Animais , Betaína/análogos & derivados , Catálise , Domínio Catalítico , Cloro/química , Ciclofosfamida/química , Cisteína/química , Dissulfetos , Ditiotreitol/química , Escherichia coli/metabolismo , Cinética , Ligantes , Mercaptoetanol/química , Modelos Moleculares , Conformação Molecular , Simulação de Acoplamento Molecular , Oxirredução , Oxigênio/química , Preparações Farmacêuticas/metabolismo , Conformação Proteica , Substâncias Redutoras/química , Suínos
13.
J Forensic Sci ; 66(2): 700-708, 2021 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-33284476

RESUMO

DNA extractions of semen samples commonly utilize dithiothreitol (DTT) to reduce and disrupt disulfide bonds. Although traditional extraction techniques remove DTT before downstream analyses, the forensic DNA community has recently explored Y-screening, direct amplification, and direct cell lysis assays that omit purification but employ reducing agents to lyse spermatozoa. This study examined the impact of residual DTT on downstream processes involving fluorescent dyes. Quantification using Investigator® Quantiplex HYres revealed a significant increase in the male DNA yield (p = 0.00056) and a >150,000,000-fold increase in the male:human DNA ratio when DTT remained in extracts versus when it was filtered out using a traditional purification method. When DTT was present with Quantifiler™ Trio, the true mean DNA yield for the large autosomal target significantly increased (p = 0.038) and the average reported DNA yields increased 1.1-fold, >9.5-fold, and 1.3-fold for the small autosomal, large autosomal, and male targets, respectively. DTT-spiked DNA standards from both kits were impacted similarly to samples with residual DTT, demonstrating that observed effects were related to DTT and not the extraction method. This study corroborates other reports that DTT adversely affects multiple dyes (e.g., Cy5, Quasar 670, SYBR Green I, TMR, and Mustang Purple® ). Overall, DTT causes inaccurate quantities and, consequently, inaccurate calculated male:female ratios when used in conjunction with these kits. Thus, implementation of newer direct-to-PCR assays incorporating DTT should either be avoided or used only with carefully evaluated, compatible dyes.


Assuntos
Impressões Digitais de DNA , Ditiotreitol/química , Corantes Fluorescentes/química , Reação em Cadeia da Polimerase em Tempo Real , DNA/análise , Eletroforese Capilar , Humanos , Indicadores e Reagentes/química , Masculino , Repetições de Microssatélites , Espermatozoides/química
14.
Chembiochem ; 22(7): 1285-1291, 2021 04 06.
Artigo em Inglês | MEDLINE | ID: mdl-33175409

RESUMO

Evolutionarily elderly proteins commonly feature greater catalytic promiscuity. Cytochrome c is among the first set of proteins in evolution to have known prospects in electron transport and peroxidative properties. Here, we report that cyt c is also a proficient proton-transfer catalyst and enhances the Kemp elimination (KE; model reaction to show proton transfer catalytic property) by ∼750-fold on self-organized systems like micelles and vesicles. The self-organized systems mimic the mitochondrial environment in vitro for cyt c. Using an array of biophysical and biochemical mutational assays, both acid-base and redox mechanistic pathways have been explored. The histidine moiety close to hemin group (His18) is mainly responsible for proton abstraction to promote the concerted E2 pathway for KE catalysis when cyt c is in its oxidized form; this has also been confirmed by a H18A mutant of cyt c. However, the redox pathway is predominant under reducing conditions in the presence of dithiothreitol over the pH range 6-7.4. Interestingly, we found almost 750-fold enhanced KE catalysis by cyt c compared to aqueous buffer. Overall, in addition to providing mechanistic insights, the data reveal an unprecedented catalytic property of cyt c that could be of high importance in an evolutionary perspective considering its role in delineating the phylogenic tree and also towards generating programmable designer biocatalysts.


Assuntos
Citocromos c/metabolismo , Biocatálise , Citocromos c/genética , Ditiotreitol/química , Hemina/química , Histidina/química , Concentração de Íons de Hidrogênio , Mutagênese Sítio-Dirigida , Oxirredução , Prótons
15.
Biochemistry ; 59(38): 3615-3625, 2020 09 29.
Artigo em Inglês | MEDLINE | ID: mdl-32915550

RESUMO

Avian magnetoreception is assumed to occur in the retina. Although its molecular mechanism is unclear, magnetic field-dependent formation and the stability of radical-containing photointermediate(s) are suggested to play key roles in a hypothesis called the radical pair mechanism. Chicken cryptochrome4 (cCRY4) has been identified as a candidate magnetoreceptive molecule due to its expression in the retina and its ability to form stable flavin neutral radicals (FADH●) upon blue light absorption. Herein, we used millisecond flash photolysis to investigate the cCRY4 photocycle, in both the presence and absence of dithiothreitol (DTT); detecting the anion radical form of FAD (FAD●-) under both conditions. Using spectral data obtained during flash photolysis and UV-visible photospectroscopy, we estimated the absolute absorbance spectra of the photointermediates, thus allowing us to decompose each spectrum into its individual components. Notably, in the absence of DTT, approximately 37% and 63% of FAD●- was oxidized to FADOX and protonated to form FADH●, respectively. Singular value decomposition analysis suggested the presence of two FAD●- molecular species, each of which was destined to be oxidized to FADOX or protonated to FADH●. A tyrosine neutral radical was also detected; however, it likely decayed concomitantly with the oxidation of FAD●-. On the basis of these results, we considered the occurrence of bifurcation prior to FAD●- generation, or during FAD●- oxidization, and discussed the potential role played by the tyrosine radical in the radical pair mechanism.


Assuntos
Proteínas Aviárias/química , Criptocromos/química , Animais , Proteínas Aviárias/efeitos da radiação , Galinhas , Criptocromos/efeitos da radiação , Ditiotreitol/química , Flavina-Adenina Dinucleotídeo/química , Flavina-Adenina Dinucleotídeo/efeitos da radiação , Radicais Livres/química , Luz , Oxirredução , Fotólise , Tirosina/química
16.
Biochemistry ; 59(36): 3285-3289, 2020 09 15.
Artigo em Inglês | MEDLINE | ID: mdl-32841567

RESUMO

Protein biochemistry protocols typically include disulfide bond reducing agents to guard against unwanted thiol oxidation and protein aggregation. Commonly used disulfide bond reducing agents include dithiothreitol, ß-mercaptoethanol, glutathione, and the tris(alkyl)phosphine compounds tris(2-carboxyethyl)phosphine (TCEP) and tris(3-hydroxypropyl)phosphine (THPP). While studying the catalytic activity of the NAD(P)H-dependent enzyme Δ1-pyrroline-5-carboxylate reductase, we unexpectedly observed a rapid non-enzymatic chemical reaction between NAD+ and the reducing agents TCEP and THPP. The product of the reaction exhibits a maximum ultraviolet absorbance peak at 334 nm and forms with an apparent association rate constant of 231-491 M-1 s-1. The reaction is reversible, and nuclear magnetic resonance characterization (1H, 13C, and 31P) of the product revealed a covalent adduct between the phosphorus of the tris(alkyl)phosphine reducing agent and the C4 atom of the nicotinamide ring of NAD+. We also report a 1.45 Å resolution crystal structure of short-chain dehydrogenase/reductase with the NADP+-TCEP reaction product bound in the cofactor binding site, which shows that the adduct can potentially inhibit enzymes. These findings serve to caution researchers when using TCEP or THPP in experimental protocols with NAD(P)+. Because NAD(P)+-dependent oxidoreductases are widespread in nature, our results may be broadly relevant.


Assuntos
Burkholderia/enzimologia , Ditiotreitol/química , NAD/metabolismo , Fosfinas/química , Substâncias Redutoras/química , Redutases-Desidrogenases de Cadeia Curta/química , Redutases-Desidrogenases de Cadeia Curta/metabolismo , Proteínas de Bactérias/química , Proteínas de Bactérias/metabolismo , Dissulfetos/química , Oxirredução , Conformação Proteica , Domínios Proteicos
17.
Anal Chem ; 92(13): 8810-8818, 2020 07 07.
Artigo em Inglês | MEDLINE | ID: mdl-32510199

RESUMO

The cellular redox balance plays a significant role in cell fate decisions and in the regulation of responses to various kinds of stress. In this study, we defined a novel concept of the oxidative-redox metabolome, and established a method for the simultaneous quantification of 23 metabolites involved in the oxidative-redox metabolome, covering NAD+ pathway, FAD pathway, GSSG pathway, and ATP pathway by using the AB SCIEX 5500 QTRAP LC/MS/MS system. Corresponding oxidative-redox metabolomics analysis was performed in plasma of humans, hamsters and mice, and hamsters were demonstrated to display a stronger resemblance than mice to humans. The known reductant dithiothreitol (DTT) and oxidant hydrogen peroxide (H2O2) were selected to treat A549 and HeLa cells to validate the current method, showing that DTT moderately increased while H2O2 greatly decreased most analytes. Antibiotic treatment may disturb the oxidative-redox balance in vivo. By comparing the oxidative-redox metabolome in antibiotic-fed hamsters with that of control hamsters, we demonstrated a substantial metabolic disparity between the two, further verifying the applicability and reliability of our method.


Assuntos
Metaboloma , Espectrometria de Massas em Tandem/métodos , Células A549 , Animais , Cromatografia Líquida de Alta Pressão , Cricetinae , Análise Discriminante , Ditiotreitol/química , Flavina-Adenina Dinucleotídeo/análise , Flavina-Adenina Dinucleotídeo/química , Flavina-Adenina Dinucleotídeo/metabolismo , Células HeLa , Humanos , Peróxido de Hidrogênio/química , Análise dos Mínimos Quadrados , Limite de Detecção , Camundongos , NAD/análise , NAD/química , NAD/metabolismo , Oxirredução
18.
Bioprocess Biosyst Eng ; 43(11): 1931-1941, 2020 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-32447513

RESUMO

A purification system was constructed with the N-segment of the Npu DnaE split intein as an affinity ligand immobilized onto an epoxy-activated medium and the C-segment used as the cleavable tag fusing target protein. The affinity properties of C-tagged proteins adsorbed on IN affinity chromatography medium were studied with GFP as a model target protein. The saturated adsorption capacity and dynamic adsorption capacity reached 51.9-21.0 mg mL-1, respectively. With this system, two model proteins, GFP and alcohol dehydrogenase (ADH), has been successfully taglessly purified with regulation of Zn2+ and DTT. The yield, purification factor and purity of purified tagless GFP reached 39, 11.7 and 97%, respectively; while these values for purified tagless ADH were 38.2, 6.8 and 91%, respectively. These results showed that the system for Npu DnaE split intein-mediated affinity adsorption and in situ cleavage is a potential platform for recombinant protein production.


Assuntos
Biotecnologia/métodos , Cromatografia de Afinidade/instrumentação , Cromatografia de Afinidade/métodos , Proteínas Recombinantes/isolamento & purificação , Álcool Desidrogenase/química , DNA Polimerase III/genética , DNA Polimerase III/metabolismo , Ditiotreitol/química , Escherichia coli/metabolismo , Proteínas de Fluorescência Verde/química , Inteínas , Ligantes , Domínios Proteicos , Processamento de Proteína , Proteínas Recombinantes/química , Zinco/química
19.
Anal Chem ; 92(9): 6235-6240, 2020 05 05.
Artigo em Inglês | MEDLINE | ID: mdl-32255623

RESUMO

With the ever-growing need for protein-level understanding in pathological research, proteomics researchers thrive to examine detailed proteome dynamics using crucial, yet often limited, primary and clinical samples. Aside from mass spectrometer instrumentation advancement, a single-tube-based high-throughput sample processing workflow is imperative to ensure sensitive, quantitative, and reproducible protein analysis for these increasingly sophisticated studies. Leveraging the benefits of an acid-cleavable detergent, RapiGest SF Surfactant (Waters Corporation), we developed and optimized a nanoproteomic workflow that we termed Nanogram TMT Processing in One Tube (NanoTPOT). Through the assessment of proteolytic digestion, tandem mass tag (TMT) labeling, online and offline fractionation strategies, our optimized workflow effectively eliminated the need for sample desalting and enabled compatible sample processing for mass spectrometry analysis. We further applied the NanoTPOT workflow to examine cellular response to stress caused by dithiothreitol in HeLa cells, where we identified and quantified 6935 and 5474 proteins in TMT 10-plex experiments with one microgram of lysate protein and 2000 sorted HeLa cells (roughly half microgram lysate protein) in each channel, respectively. Our workflow has been proven to be an effective alternative for current nanoproteomic sample processing to minimize sample loss in biological and clinical applications.


Assuntos
Proteômica/métodos , Manejo de Espécimes , Cromatografia Líquida de Alta Pressão , Cromatografia de Fase Reversa , Ditiotreitol/química , Células HeLa , Humanos , Sondas Moleculares/química , Nanotecnologia , Peptídeos/análise , Peptídeos/química , Proteólise , Succinimidas/química , Espectrometria de Massas em Tandem
20.
Bioorg Med Chem Lett ; 30(12): 127177, 2020 06 15.
Artigo em Inglês | MEDLINE | ID: mdl-32284275

RESUMO

Pholasin is a photoprotein derived from the glowing bivalve mollusk, Pholas dactylus. Even though the chemical structure of the prosthetic group (chromophore) responsible for the light emission character of the mollusk remains unknown, research has shown that the presence of dehydrocoelenterazine (DCL) increased light emission and that the dithiothreitol adduct of DCL was isolated from Pholasin®. To date, our research has been focused on activating apopholasin, the naturally occurring apoprotein of Pholasin®, using DCL. In the current study, the expression of recombinant apopholasin via a baculovirus-silkworm multigene expression system is reported. Additionally, the purification of apopholasin using a Flag®-affinity column, the activation of apopholasin using DCL, and the initiation of its luminescent character through the addition of a peroxidase-hydrogen peroxide mixture are reported. The peroxidase-H2O2-dependent luminescence was observed from the recombinant apopholasin activated with DCL.


Assuntos
Baculoviridae/genética , Bombyx/metabolismo , Luciferina de Vaga-Lumes/metabolismo , Imidazóis/metabolismo , Proteínas Luminescentes/genética , Pirazinas/metabolismo , Proteínas Recombinantes/genética , Animais , Bombyx/genética , Ditiotreitol/química , Regulação da Expressão Gênica , Peróxido de Hidrogênio/metabolismo , Medições Luminescentes , Proteínas Luminescentes/metabolismo , Moluscos/metabolismo , Peroxidase/metabolismo , Proteínas Recombinantes/metabolismo , Relação Estrutura-Atividade
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