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1.
Chembiochem ; 24(9): e202300146, 2023 05 02.
Artículo en Inglés | MEDLINE | ID: mdl-36940139

RESUMEN

The formal asymmetric and stereodivergent enzymatic reduction of α-angelica lactone to both enantiomers of γ-valerolactone was achieved in a one-pot cascade by uniting the promiscuous stereoselective isomerization activity of Old Yellow Enzymes with their native reductase activity. In addition to running the cascade with one enzyme for each catalytic step, a bifunctional isomerase-reductase biocatalyst was designed by fusing two Old Yellow Enzymes, thereby generating an unprecedented case of an artificial enzyme catalyzing the reduction of nonactivated C=C bonds to access (R)-valerolactone in overall 41 % conversion and up to 91 % ee. The enzyme BfOYE4 could be used as single biocatalyst for both steps and delivered (S)-valerolactone in up to 84 % ee and 41 % overall conversion. The reducing equivalents were provided by a nicotinamide recycling system based on formate and formate dehydrogenase, added in a second step. This enzymatic system provides an asymmetric route to valuable chiral building blocks from an abundant bio-based chemical.


Asunto(s)
4-Butirolactona , Lactonas , Oxidorreductasas/metabolismo , Biocatálisis
2.
Int J Mol Sci ; 23(6)2022 Mar 11.
Artículo en Inglés | MEDLINE | ID: mdl-35328465

RESUMEN

Aiming at expanding the portfolio of Old Yellow Enzymes (OYEs), which have been systematically studied to be employed in the chemical and pharmaceutical industries as useful biocatalysts, we decided to explore the immense reservoir of filamentous fungi. We drew from the genome of the two Ascomycetes Aspergillus niger and Botryotinia fuckeliana four new members of the OYE superfamily belonging to the classical and thermophilic-like subfamilies. The two BfOYEs show wider substrate spectra than the AnOYE homologues, which appear as more specialized biocatalysts. According to their mesophilic origins, the new enzymes neither show high thermostability nor extreme pH optimums. The crystal structures of BfOYE4 and AnOYE8 have been determined, revealing the conserved features of the thermophilic-like subclass as well as unique properties, such as a peculiar N-terminal loop involved in dimer surface interactions. For the classical representatives BfOYE1 and AnOYE2, model structures were built and analyzed, showing surprisingly wide open access to the active site cavities due to a shorter ß6-loop and a disordered capping subdomain.


Asunto(s)
Ascomicetos , NADPH Deshidrogenasa , Ascomicetos/metabolismo , Dominio Catalítico , NADPH Deshidrogenasa/metabolismo , Especificidad por Sustrato
3.
Chemistry ; 27(13): 4384-4393, 2021 Mar 01.
Artículo en Inglés | MEDLINE | ID: mdl-33284485

RESUMEN

Tyrosinase enzymes (Tys) are involved in the key steps of melanin (protective pigments) biosynthesis and molecules targeting the binuclear copper active site on tyrosinases represent a relevant strategy to regulate enzyme activities. In this work, the possible synergic effect generated by a combination of known inhibitors is studied. For this, derivatives containing kojic acid (KA) and 2-hydroxypyridine-N-oxide (HOPNO) combined with a thiosemicarbazone (TSC) moiety were synthetized. Their inhibition activities were evaluated on purified tyrosinases from different sources (mushroom, bacterial, and human) as well as on melanin production by lysates from the human melanoma MNT-1 cell line. Results showed significant enhancement of the inhibitory effects compared with the parent compounds, in particular for HOPNO-TSC. To elucidate the interaction mode with the dicopper(II) active site, binding studies with a tyrosinase bio-inspired model of the dicopper(II) center were investigated. The structure of the isolated adduct between one ditopic inhibitor (KA-TSC) and the model complex reveals that the binding to a dicopper center can occur with both chelating sites. Computational studies on model complexes and docking studies on enzymes led to the identification of KA and HOPNO moieties as interacting groups with the dicopper active site.


Asunto(s)
Agaricales , Monofenol Monooxigenasa , Agaricales/metabolismo , Quelantes , Inhibidores Enzimáticos/farmacología , Humanos , Monofenol Monooxigenasa/metabolismo , Relación Estructura-Actividad
4.
Phys Chem Chem Phys ; 22(35): 19982-19991, 2020 Sep 16.
Artículo en Inglés | MEDLINE | ID: mdl-32869045

RESUMEN

We report the observation of electron spin polarization transfer from the triplet state of a porphyrin to a weakly coupled nitroxide radical in a mutant of human neuroglobin (NGB). The native iron-containing heme substrate of NGB has been substituted with Zn(ii) protoporphyrin IX and the nitroxide has been attached via site-directed spin labeling to the Cys120 residue. A reference synthetic polypeptide with free base tetraphenylporphyrin and a nitroxide bound to it is also studied. In both systems the nitroxide and the porphyrin are held at a fixed distance of approximately 2.4 nm. The transient EPR data of the NGB sample show that the triplet state of Zn(ii) protoporphyrin acquires significant net polarization, which is attributed to the dynamic Jahn-Teller effect. As the spin polarization of the protoporphyrin triplet state decays, a polarized EPR signal of the nitroxide arises. In contrast, the free base porphyrin in the reference polypeptide does not acquire net polarization and no polarization of the nitroxide label is observed. This is likely a result of the fact that the porphyrin is not Jahn-Teller active because of its lower symmetry. A perturbation theory treatment suggests that in the NGB sample, the polarization of the radical occurs by the transfer of net polarization from the triplet state. This process is also enhanced by the spectral broadening caused by the back and forth transitions associated with the dynamic Jahn-Teller effect. We propose that the novel transfer of polarization to the radical could be exploited to enhance the sensitivity of light-induced dipolar spectroscopy experiments.


Asunto(s)
Radicales Libres/química , Neuroglobina/química , Óxidos N-Cíclicos/química , Cisteína/química , Espectroscopía de Resonancia por Spin del Electrón , Humanos , Mesilatos/química , Protoporfirinas/química , Marcadores de Spin
5.
Appl Microbiol Biotechnol ; 104(5): 2051-2066, 2020 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-31930452

RESUMEN

Looking for new ene-reductases with uncovered features beneficial for biotechnological applications, by mining genomes of photosynthetic extremophile organisms, we identified two new Old Yellow Enzyme homologues: CtOYE, deriving from the cyanobacterium Chroococcidiopsis thermalis, and GsOYE, from the alga Galdieria sulphuraria. Both enzymes were produced and purified with very good yields and displayed catalytic activity on a broad substrate spectrum by reducing α,ß-unsaturated ketones, aldehydes, maleimides and nitroalkenes with good to excellent stereoselectivity. Both enzymes prefer NADPH but demonstrate a good acceptance of NADH as cofactor. CtOYE and GsOYE represent robust biocatalysts showing high thermostability, a wide range of pH optimum and good co-solvent tolerance. High resolution X-ray crystal structures of both enzymes have been determined, revealing conserved features of the classical OYE subfamily as well as unique properties, such as a very long loop entering the active site or an additional C-terminal alpha helix in GsOYE. Not surprisingly, the active site of CtOYE and GsOYE structures revealed high affinity toward anions caught from the mother liquor and trapped in the anion hole where electron-withdrawing groups such as carbonyl group are engaged. Ligands (para-hydroxybenzaldehyde and 2-methyl-cyclopenten-1-one) added on purpose to study complexes of GsOYE were detected in the enzyme catalytic cavity, stacking on top of the FMN cofactor, and support the key role of conserved residues and FMN cofactor in the catalysis.


Asunto(s)
Extremófilos/enzimología , NADPH Deshidrogenasa/química , NADPH Deshidrogenasa/metabolismo , Alquenos/metabolismo , Biocatálisis , Dominio Catalítico , Cristalografía por Rayos X , Cianobacterias/enzimología , Cianobacterias/genética , Cianobacterias/metabolismo , Bases de Datos Genéticas , Estabilidad de Enzimas , Extremófilos/genética , Extremófilos/metabolismo , Mononucleótido de Flavina/metabolismo , Cinética , Modelos Moleculares , NADP/metabolismo , NADPH Deshidrogenasa/genética , NADPH Deshidrogenasa/aislamiento & purificación , Oxidación-Reducción , Conformación Proteica , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/aislamiento & purificación , Proteínas Recombinantes/metabolismo , Rhodophyta/enzimología , Rhodophyta/genética , Especificidad por Sustrato
6.
Chemphyschem ; 20(7): 931-935, 2019 04 02.
Artículo en Inglés | MEDLINE | ID: mdl-30817078

RESUMEN

Light-induced pulsed EPR dipolar spectroscopic methods allow the determination of nanometer distances between paramagnetic sites. Here we employ orthogonal spin labels, a chromophore triplet state and a stable radical, to carry out distance measurements in singly nitroxide-labeled human neuroglobin. We demonstrate that Zn-substitution of neuroglobin, to populate the Zn(II) protoporphyrin IX triplet state, makes it possible to perform light-induced pulsed dipolar experiments on hemeproteins, extending the use of light-induced dipolar spectroscopy to this large class of metalloproteins. The versatility of the method is ensured by the employment of different techniques: relaxation-induced dipolar modulation enhancement (RIDME) is applied for the first time to the photoexcited triplet state. In addition, an alternative pulse scheme for laser-induced magnetic dipole (LaserIMD) spectroscopy, based on the refocused-echo detection sequence, is proposed for accurate zero-time determination and reliable distance analysis.


Asunto(s)
Neuroglobina/química , Óxidos N-Cíclicos/química , Cisteína/química , Espectroscopía de Resonancia por Spin del Electrón , Humanos , Luz , Mesilatos/química , Estructura Molecular , Mutación , Neuroglobina/genética , Protoporfirinas/química , Protoporfirinas/efectos de la radiación , Marcadores de Spin
7.
Plant Cell Physiol ; 57(4): 862-77, 2016 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-26880819

RESUMEN

The unicellular photosynthetic cyanobacterium, able to survive in varying environments, is the only prokaryote that directly converts solar energy and CO2 into organic material and is thus relevant for primary production in many ecosystems. To maintain the intracellular and intrathylakoid ion homeostasis upon different environmental challenges, the concentration of potassium as a major intracellular cation has to be optimized by various K(+)uptake-mediated transport systems. We reveal here the specific and concerted physiological function of three K(+)transporters of the plasma and thylakoid membranes, namely of SynK (K(+)channel), KtrB (Ktr/Trk/HKT) and KdpA (Kdp) in Synechocystis sp. strain PCC 6803, under specific stress conditions. The behavior of the wild type, single, double and triple mutants was compared, revealing that only Synk contributes to heavy metal-induced stress, while only Ktr/Kdp is involved in osmotic and salt stress adaptation. With regards to pH shifts in the external medium, the Kdp/Ktr uptake systems play an important role in the adaptation to acidic pH. Ktr, by affecting the CO2 concentration mechanism via its action on the bicarbonate transporter SbtA, might also be responsible for the observed effects concerning high-light stress and calcification. In the case of illumination with high-intensity light, a synergistic action of Kdr/Ktp and SynK is required in order to avoid oxidative stress and ensure cell viability. In summary, this study dissects, using growth tests, measurement of photosynthetic activity and analysis of ultrastructure, the physiological role of three K(+)transporters in adaptation of the cyanobacteria to various environmental changes.


Asunto(s)
Proteínas Bacterianas/metabolismo , Metales Pesados/toxicidad , Potasio/metabolismo , Synechocystis/fisiología , Adaptación Fisiológica , Proteínas Bacterianas/genética , Calcio/farmacología , Proteínas de Transporte de Catión/genética , Proteínas de Transporte de Catión/metabolismo , Concentración de Iones de Hidrógeno , Mutación , Presión Osmótica , Fotosíntesis , Estrés Fisiológico/efectos de los fármacos , Synechocystis/efectos de los fármacos , Synechocystis/metabolismo
8.
Appl Microbiol Biotechnol ; 99(22): 9541-54, 2015 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-26104866

RESUMEN

Formate dehydrogenases (FDHs) are considered particularly useful enzymes in biocatalysis when the regeneration of the cofactor NAD(P)H is required, that is, in chiral synthesis with dehydrogenases. Their utilization is however limited to the recycling of NAD(+), since all (apart one) of the FDHs characterized so far are strictly specific for this cofactor, and this is a major drawback for their otherwise wide applicability. Despite the many attempts performed to modify cofactor specificity by protein engineering different NAD(+)-dependent FDHs, in the general practice, glucose or phosphite dehydrogenases are chosen for the recycling of NADP(+). We report on the functional and structural characterization of a new FDH, GraFDH, identified by mining the genome of the extremophile prokaryote Granulicella mallensis MP5ACTX8. The new enzyme displays a valuable stability in the presence of many organic cosolvents as well as double cofactor specificity, with NADP(+) preferred over NAD(+) at acidic pH values, at which it also shows the highest stability. The quite low affinities for both cofactors as well as for the substrate formate indicate, however, that the native enzyme requires optimization to be applied as biocatalytic tool. We also determined the crystal structure of GraFDH both as apoprotein and as holoprotein, either in complex with NAD(+) or NADP(+). Noticeably, the latter represents the first structure of an FDH enzyme in complex with NADP(+). This fine picture of the structural determinants involved in cofactor selectivity will possibly boost protein engineering of the new enzyme or other homolog FDHs in view of their biocatalytic exploitation for NADP(+) recycling.


Asunto(s)
Acidobacteria/enzimología , Formiato Deshidrogenasas/química , Formiato Deshidrogenasas/metabolismo , Acidobacteria/genética , Secuencia de Aminoácidos , Biocatálisis , Cristalografía por Rayos X , Estabilidad de Enzimas , Formiato Deshidrogenasas/aislamiento & purificación , Genoma Bacteriano , Concentración de Iones de Hidrógeno , Cinética , Modelos Moleculares , NAD/metabolismo , NADP/metabolismo , Oxidación-Reducción , Ingeniería de Proteínas , Alineación de Secuencia
9.
Proc Natl Acad Sci U S A ; 109(27): 11043-8, 2012 Jul 03.
Artículo en Inglés | MEDLINE | ID: mdl-22711813

RESUMEN

A potassium channel (SynK) of the cyanobacterium Synechocystis sp. PCC 6803, a photoheterotrophic model organism for the study of photosynthesis, has been recently identified and demonstrated to function as a potassium selective channel when expressed in a heterologous system and to be located predominantly to the thylakoid membrane in cyanobacteria. To study its physiological role, a SynK-less knockout mutant was generated and characterized. Fluorimetric experiments indicated that SynK-less cyanobacteria cannot build up a proton gradient as efficiently as WT organisms, suggesting that SynK might be involved in the regulation of the electric component of the proton motive force. Accordingly, measurements of flash-induced cytochrome b(6)f turnover and respiration pointed to a reduced generation of ΔpH and to an altered linear electron transport in mutant cells. The lack of the channel did not cause an altered membrane organization, but decreased growth and modified the photosystem II/photosystem I ratio at high light intensities because of enhanced photosensitivity. These data shed light on the function of a prokaryotic potassium channel and reports evidence, by means of a genetic approach, on the requirement of a thylakoid ion channel for optimal photosynthesis.


Asunto(s)
Proteínas Bacterianas/fisiología , Fotosíntesis/fisiología , Canales de Potasio/fisiología , Synechocystis/fisiología , Tilacoides/fisiología , Proteínas Bacterianas/genética , Clorofila/metabolismo , Transporte de Electrón , Técnicas de Inactivación de Genes , Potenciales de la Membrana/fisiología , Oxígeno/metabolismo , Proteínas del Complejo del Centro de Reacción Fotosintética/genética , Proteínas del Complejo del Centro de Reacción Fotosintética/fisiología , Complejo de Proteína del Fotosistema I/fisiología , Complejo de Proteína del Fotosistema II/fisiología , Canales de Potasio/genética , Protones , Synechocystis/genética
10.
Chembiochem ; 15(9): 1325-33, 2014 Jun 16.
Artículo en Inglés | MEDLINE | ID: mdl-24849818

RESUMEN

Tyrosinase is a copper-containing enzyme found in plants and bacteria, as well as in humans, where it is involved in the biosynthesis of melanin-type pigments. Tyrosinase inhibitors have attracted remarkable research interest as whitening agents in cosmetology, antibrowning agents in food chemistry, and as therapeutics. In this context, commercially available tyrosinase from mushroom (TyM) is frequently used for the identification of inhibitors. This and bacterial tyrosinase (TyB) have been the subjects of intense biochemical and structural studies, including X-ray diffraction analysis, and this has led to the identification of structural homology and divergence among enzymes from different sources. To better understand the behavior of potential inhibitors of TyM and TyB, we selected the aurone family-previously identified as potential inhibitors of melanin biosynthesis in human melanocytes. In this study, a series of 24 aurones with different hydroxylation patterns at the A- and B-rings were evaluated on TyM and TyB. The results show that, depending on the hydroxylation pattern of A- and B-rings, aurones can behave as inhibitors, substrates, and activators of both enzymes. Computational analysis was performed to identify residues surrounding the aurones in the active sites of both enzymes and to rationalize the interactions. Our results highlight similarities and divergence in the behavior of TyM and TyB toward the same set of molecules.


Asunto(s)
Agaricus/enzimología , Benzofuranos/farmacología , Inhibidores Enzimáticos/farmacología , Monofenol Monooxigenasa/antagonistas & inhibidores , Streptomyces antibioticus/enzimología , Benzofuranos/química , Sitios de Unión/efectos de los fármacos , Relación Dosis-Respuesta a Droga , Inhibidores Enzimáticos/química , Modelos Moleculares , Estructura Molecular , Monofenol Monooxigenasa/metabolismo , Relación Estructura-Actividad
11.
Plant Physiol ; 162(2): 953-64, 2013 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-23640756

RESUMEN

Despite the important achievement of the high-resolution structures of several prokaryotic channels, current understanding of their physiological roles in bacteria themselves is still far from complete. We have identified a putative two transmembrane domain-containing channel, SynCaK, in the genome of the freshwater cyanobacterium Synechocystis sp. PCC 6803, a model photosynthetic organism. SynCaK displays significant sequence homology to MthK, a calcium-dependent potassium channel isolated from Methanobacterium thermoautotrophicum. Expression of SynCaK in fusion with enhanced GFP in mammalian Chinese hamster ovary cells' plasma membrane gave rise to a calcium-activated, potassium-selective activity in patch clamp experiments. In cyanobacteria, Western blotting of isolated membrane fractions located SynCaK mainly to the plasma membrane. To understand its physiological function, a SynCaK-deficient mutant of Synechocystis sp. PCC 6803, ΔSynCaK, has been obtained. Although the potassium content in the mutant organisms was comparable to that observed in the wild type, ΔSynCaK was characterized by a depolarized resting membrane potential, as determined by a potential-sensitive fluorescent probe. Growth of the mutant under various conditions revealed that lack of SynCaK does not impair growth under osmotic or salt stress and that SynCaK is not involved in the regulation of photosynthesis. Instead, its lack conferred an increased resistance to the heavy metal zinc, an environmental pollutant. A similar result was obtained using barium, a general potassium channel inhibitor that also caused depolarization. Our findings thus indicate that SynCaK is a functional channel and identify the physiological consequences of its deletion in cyanobacteria.


Asunto(s)
Proteínas Bacterianas/metabolismo , Canales de Potasio Calcio-Activados/metabolismo , Synechocystis/fisiología , Secuencia de Aminoácidos , Animales , Proteínas Bacterianas/genética , Células CHO , Calcio/metabolismo , Membrana Celular/metabolismo , Cricetinae , Cricetulus , Regulación de la Expresión Génica , Potenciales de la Membrana , Methanobacterium/genética , Datos de Secuencia Molecular , Mutación , Presión Osmótica , Técnicas de Placa-Clamp , Canales de Potasio Calcio-Activados/química , Canales de Potasio Calcio-Activados/genética , Proteínas Recombinantes de Fusión/genética , Proteínas Recombinantes de Fusión/metabolismo , Synechocystis/efectos de los fármacos , Synechocystis/genética , Synechocystis/metabolismo , Zinc/metabolismo , Zinc/farmacología
12.
Eur J Med Chem ; 248: 115090, 2023 Feb 15.
Artículo en Inglés | MEDLINE | ID: mdl-36634457

RESUMEN

In human, Tyrosinase enzyme (TyH) is involved in the key steps of protective pigments biosynthesis (in skin, eyes and hair). The use of molecules targeting its binuclear copper active site represents a relevant strategy to regulate TyH activities. In this work, we targeted 2-Hydroxypyridine-N-oxide analogs (HOPNO, an established chelating group for the tyrosinase dicopper active site) with the aim to combine effects induced by combination with a reference inhibitor (kojic acid) or natural substrate (tyrosine). The HOPNO-MeOH (3) and the racemic amino acid HOPNO-AA compounds (11) were tested on purified tyrosinases from different sources (fungal, bacterial and human) for comparison purposes. Both compounds have more potent inhibitory activities than the parent HOPNO moiety and display strictly competitive inhibition constant, in particular with human tyrosinase. Furthermore, 11 appears to be the most active on the B16-F1 mammal melanoma cells. The investigations were completed by stereospecificity analysis. Racemic mixture of the fully protected amino acid 10 was separated by chiral HPLC into the corresponding enantiomers. Assignment of the absolute configuration of the deprotected compounds was completed, based on X-ray crystallography. The inhibition activities on melanin production were tested on lysates and whole human melanoma MNT-1 cells. Results showed significant enhancement of the inhibitory effects for the (S) enantiomer compared to the (R) enantiomer. Computational studies led to an explanation of this difference of activity based for both enantiomers on the respective position of the amino acid group versus the HOPNO plane.


Asunto(s)
Melanoma Experimental , Monofenol Monooxigenasa , Animales , Humanos , Inhibidores Enzimáticos/farmacología , Inhibidores Enzimáticos/química , Dominio Catalítico , Aminoácidos , Melaninas , Mamíferos/metabolismo
13.
Biomedicines ; 10(1)2022 Jan 04.
Artículo en Inglés | MEDLINE | ID: mdl-35052783

RESUMEN

Homo- and heterophilic binding mediated by the immunoglobulin (Ig)-like repeats of cell adhesion molecules play a pivotal role in cell-cell and cell-extracellular matrix interactions. L1CAM is crucial to neuronal differentiation, in both mature and developing nervous systems, and several studies suggest that its functional interactions are mainly mediated by Ig2-Ig2 binding. X-linked mutations in the human L1CAM gene are summarized as L1 diseases, including the most diagnosed CRASH neurodevelopmental syndrome. In silico simulations provided a molecular rationale for CRASH phenotypes resulting from mutations I179S and R184Q in the homophilic binding region of Ig2. A synthetic peptide reproducing such region could both mimic the neuritogenic capacity of L1CAM and rescue neuritogenesis in a cellular model of the CRASH syndrome, where the full L1CAM ectodomain proved ineffective. Presented functional evidence opens the route to the use of L1CAM-derived peptides as biotechnological and therapeutic tools.

14.
Biochem Biophys Res Commun ; 405(4): 678-83, 2011 Feb 25.
Artículo en Inglés | MEDLINE | ID: mdl-21284939

RESUMEN

[FeFe]-hydrogenases have been claimed as the most promising catalysts of hydrogen bioproduction and several efforts have been accomplished to express and purify them. However, previous attemps to obtain a functional recombinant [FeFe]-hydrogenase in heterologous systems such as Escherichia coli failed due to the lack of the specific maturation proteins driving the assembly of its complex active site. The unique exception is that of [FeFe]-hydrogenase from Clostridium pasteurianum that has been expressed in active form in the cyanobacterium Synechococcus PCC 7942, which holds a bidirectional [NiFe]-hydrogenase with a well characterized maturation system, suggesting that the latter is flexible enough to drive the synthesis of a [FeFe]-enzyme. However, the capability of cyanobacteria to correctly fold a [FeFe]-hydrogenase in the absence of its auxiliary maturation proteins is a debated question. In this work, we expressed the [FeFe]-hydrogenase from Chlamydomonas reinhardtii as an active enzyme in the cyanobacterium Synechocystis sp. PCC 6803. Our results, using a different experimental system, confirm that cyanobacteria are able to express a functional [FeFe]-hydrogenase even in the absence of additional chaperones.


Asunto(s)
Clostridium/enzimología , Hidrogenasas/biosíntesis , Proteínas Hierro-Azufre/biosíntesis , Proteínas Recombinantes/biosíntesis , Synechocystis/enzimología , Hidrógeno/metabolismo , Hidrogenasas/química , Hidrogenasas/genética , Proteínas Hierro-Azufre/química , Proteínas Hierro-Azufre/genética , Mutagénesis Sitio-Dirigida , Plásmidos/genética , Proteínas Recombinantes/química , Proteínas Recombinantes/genética
15.
PLoS Biol ; 6(1): e6, 2008 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-18198943

RESUMEN

Human alpha-Synuclein (alphaSyn) is a natively unfolded protein whose aggregation into amyloid fibrils is involved in the pathology of Parkinson disease. A full comprehension of the structure and dynamics of early intermediates leading to the aggregated states is an unsolved problem of essential importance to researchers attempting to decipher the molecular mechanisms of alphaSyn aggregation and formation of fibrils. Traditional bulk techniques used so far to solve this problem point to a direct correlation between alphaSyn's unique conformational properties and its propensity to aggregate, but these techniques can only provide ensemble-averaged information for monomers and oligomers alike. They therefore cannot characterize the full complexity of the conformational equilibria that trigger the aggregation process. We applied atomic force microscopy-based single-molecule mechanical unfolding methodology to study the conformational equilibrium of human wild-type and mutant alphaSyn. The conformational heterogeneity of monomeric alphaSyn was characterized at the single-molecule level. Three main classes of conformations, including disordered and "beta-like" structures, were directly observed and quantified without any interference from oligomeric soluble forms. The relative abundance of the "beta-like" structures significantly increased in different conditions promoting the aggregation of alphaSyn: the presence of Cu2+, the pathogenic A30P mutation, and high ionic strength. This methodology can explore the full conformational space of a protein at the single-molecule level, detecting even poorly populated conformers and measuring their distribution in a variety of biologically important conditions. To the best of our knowledge, we present for the first time evidence of a conformational equilibrium that controls the population of a specific class of monomeric alphaSyn conformers, positively correlated with conditions known to promote the formation of aggregates. A new tool is thus made available to test directly the influence of mutations and pharmacological strategies on the conformational equilibrium of monomeric alphaSyn.


Asunto(s)
alfa-Sinucleína/química , alfa-Sinucleína/metabolismo , Tampones (Química) , Dicroismo Circular , Cobre/química , Cobre/metabolismo , Entropía , Modelos Moleculares , Datos de Secuencia Molecular , Mutación/genética , Estructura Secundaria de Proteína , Estructura Terciaria de Proteína , alfa-Sinucleína/genética
16.
Microorganisms ; 9(5)2021 Apr 28.
Artículo en Inglés | MEDLINE | ID: mdl-33925162

RESUMEN

Aiming at expanding the biocatalytic toolbox of ene-reductase enzymes, we decided to explore photosynthetic extremophile microorganisms as unique reservoir of (new) biocatalytic activities. We selected a new thermophilic ene-reductase homologue in Chloroflexus aggregans, a peculiar filamentous bacterium. We report here on the functional and structural characterization of this new enzyme, which we called CaOYE. Produced in high yields in recombinant form, it proved to be a robust biocatalyst showing high thermostability, good solvent tolerance and a wide range of pH optimum. In a preliminary screening, CaOYE displayed a restricted substrate spectrum (with generally lower activities compared to other ene-reductases); however, given the amazing metabolic ductility and versatility of Chloroflexus aggregans, further investigations could pinpoint peculiar chemical activities. X-ray crystal structure has been determined, revealing conserved features of Class III (or thermophilic-like group) of the family of Old Yellow Enzymes: in the crystal packing, the enzyme was found to assemble as dimer even if it behaves as a monomer in solution. The description of CaOYE catalytic properties and crystal structure provides new details useful for enlarging knowledge, development and application of this class of enzymes.

17.
Life (Basel) ; 11(12)2021 Nov 26.
Artículo en Inglés | MEDLINE | ID: mdl-34947832

RESUMEN

One of the main concerns in industrialized countries is represented by per- and poly-fluoroalkyl substances (PFAS), persistent contaminants hardly to be dealt with by conventional wastewater treatment processes. Phyco-remediation was proposed as a green alternative method to treat wastewater. Synechocystis sp. PCC6803 is a unicellular photosynthetic organism candidate for bioremediation approaches based on synthetic biology, as it is able to survive in a wide range of polluted waters. In this work, we assessed the possibility of applying Synechocystis in PFAS-enriched waters, which was never reported in the previous literature. Respirometry was applied to evaluate short-term toxicity of perfluorooctanoic acid (PFOA) and perfluorooctane sulfonate (PFOS), which did not affect growth up to 0.5 and 4 mg L-1, respectively. Continuous and batch systems were used to assess the long-term effects, and no toxicity was highlighted for both compounds at quite high concentration (1 mg L-1). A partial removal was observed for PFOS and PFOA, (88% and 37%, with removal rates of about 0.15 and 0.36 mg L-1 d-1, respectively). Measurements in fractionated biomass suggested a role for Synechocystis in the sequestration of PFAS: PFOS is mainly internalized in the cell, while PFOA is somehow transformed by still unknown pathways. A preliminary bioinformatic search gave hints on transporters and enzymes possibly involved in such sequestration/transformation processes, opening the route to metabolic engineering in the perspective application of this cyanobacterium as a new phyco-remediation tool, based on synthetic biology.

18.
Comput Struct Biotechnol J ; 18: 1774-1789, 2020.
Artículo en Inglés | MEDLINE | ID: mdl-32695270

RESUMEN

Computationally driven engineering of proteins aims to allow them to withstand an extended range of conditions and to mediate modified or novel functions. Therefore, it is crucial to the biotechnological industry, to biomedicine and to afford new challenges in environmental sciences, such as biocatalysis for green chemistry and bioremediation. In order to achieve these goals, it is important to clarify molecular mechanisms underlying proteins stability and modulating their interactions. So far, much attention has been given to hydrophobic and polar packing interactions and stability of the protein core. In contrast, the role of electrostatics and, in particular, of surface interactions has received less attention. However, electrostatics plays a pivotal role along the whole life cycle of a protein, since early folding steps to maturation, and it is involved in the regulation of protein localization and interactions with other cellular or artificial molecules. Short- and long-range electrostatic interactions, together with other forces, provide essential guidance cues in molecular and macromolecular assembly. We report here on methods for computing protein electrostatics and for individual or comparative analysis able to sort proteins by electrostatic similarity. Then, we provide examples of electrostatic analysis and fingerprints in natural protein evolution and in biotechnological design, in fields as diverse as biocatalysis, antibody and nanobody engineering, drug design and delivery, molecular virology, nanotechnology and regenerative medicine.

19.
Nanomaterials (Basel) ; 10(3)2020 02 27.
Artículo en Inglés | MEDLINE | ID: mdl-32120984

RESUMEN

Nanocomposite scaffolds combining carbon nanomaterials (CNMs) with a biocompatible matrix are able to favor the neuronal differentiation and growth of a number of cell types, because they mimic neural-tissue nanotopography and/or conductivity. We performed comparative analysis of biomimetic scaffolds with poly-L-lactic acid (PLLA) matrix and three different p-methoxyphenyl functionalized carbon nanofillers, namely, carbon nanotubes (CNTs), carbon nanohorns (CNHs), and reduced graphene oxide (RGO), dispersed at varying concentrations. qRT-PCR analysis of the modulation of neuronal markers in human circulating multipotent cells cultured on nanocomposite scaffolds showed high variability in their expression patterns depending on the scaffolds' inhomogeneities. Local stimuli variation could result in a multi- to oligopotency shift and commitment towards multiple cell lineages, which was assessed by the qRT-PCR profiling of markers for neural, adipogenic, and myogenic cell lineages. Less conductive scaffolds, i.e., bare poly-L-lactic acid (PLLA)-, CNH-, and RGO-based nanocomposites, appeared to boost the expression of myogenic-lineage marker genes. Moreover, scaffolds are much more effective on early commitment than in subsequent differentiation. This work suggests that biomimetic PLLA carbon-nanomaterial (PLLA-CNM) scaffolds combined with multipotent autologous cells can represent a powerful tool in the regenerative medicine of multiple tissue types, opening the route to next analyses with specific and standardized scaffold features.

20.
J Exp Bot ; 60(14): 4189-200, 2009.
Artículo en Inglés | MEDLINE | ID: mdl-19773387

RESUMEN

Cytochrome f is an essential component of the major redox complex of the thylakoid membrane. Cloning and characterization are presented here of a novel partial cDNA (ChspetA) encoding cytochrome f in the psychrophile unicellular green alga Chlorella saccharophila and its involvement in the heat shock (HS) response pathway has been analysed. Semi-quantitative reverse transcriptase PCR analysis showed that ChspetA expression is up-regulated in heat-shocked cells and the protein profile of cytochrome f highlighted a release of cytochrome f into the cytosol depending on the time lapse from the HS. Evans Blue assay, analysis of chromatin condensation, and chloroplast alterations showed the induction of cell death in cell suspensions treated with cytosolic extracts from heat-shocked cells. This study identifies cytochrome f in C. saccharophila that seems to be involved in the HS-induced programmed cell death process. The data suggest that cytochrome f fulfils its role through a modulation of its transcription and translation levels, together with its intracellular localization. This work focuses on a possible role of cytochrome f into the programmed cell death-like process in a unicellular chlorophyte and suggests the existence of chloroplast-mediated programmed cell death machinery in an organism belonging to one of the primary lineages of photosynthetic eukaryotes.


Asunto(s)
Proteínas Algáceas/metabolismo , Chlorella/fisiología , Citocromos f/metabolismo , Respuesta al Choque Térmico , Proteínas Algáceas/química , Proteínas Algáceas/genética , Secuencia de Aminoácidos , Apoptosis , Secuencia de Bases , Chlorella/química , Chlorella/genética , Citocromos f/química , Citocromos f/genética , Regulación de la Expresión Génica , Datos de Secuencia Molecular , Alineación de Secuencia
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