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1.
J Enzyme Inhib Med Chem ; 36(1): 198-206, 2021 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-33530764

RESUMEN

In various malaria-endemic regions, the appearance of resistance has precluded the use of pyrimidine-based antifolate drugs. Here, a three-step fragment screening was used to identify new non-pyrimidine Plasmodium falciparum dihydrofolate reductase (PfDHFR) inhibitors. Starting from a 1163-fragment commercial library, a two-step differential scanning fluorimetry screen identified 75 primary fragment hits. Subsequent enzyme inhibition assay identified 11 fragments displaying IC50 in the 28-695 µM range and selectivity for PfDHFR. In addition to the known pyrimidine, three new anti-PfDHFR chemotypes were identified. Fragments from each chemotype were successfully co-crystallized with PfDHFR, revealing a binding in the active site, in the vicinity of catalytic residues, which was confirmed by molecular docking on all fragment hits. Finally, comparison with similar non-hit fragments provides preliminary input on available growth vectors for future drug development.


Asunto(s)
Antimaláricos/farmacología , Descubrimiento de Drogas , Inhibidores Enzimáticos/farmacología , Plasmodium falciparum/efectos de los fármacos , Proteínas Protozoarias/antagonistas & inhibidores , Antimaláricos/síntesis química , Antimaláricos/química , Cristalografía por Rayos X , Relación Dosis-Respuesta a Droga , Evaluación Preclínica de Medicamentos , Inhibidores Enzimáticos/síntesis química , Inhibidores Enzimáticos/química , Modelos Moleculares , Simulación del Acoplamiento Molecular , Estructura Molecular , Plasmodium falciparum/enzimología , Proguanil/síntesis química , Proguanil/química , Proguanil/farmacología , Proteínas Protozoarias/aislamiento & purificación , Proteínas Protozoarias/metabolismo , Pirimetamina/síntesis química , Pirimetamina/química , Pirimetamina/farmacología , Relación Estructura-Actividad , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/metabolismo , Triazinas/síntesis química , Triazinas/química , Triazinas/farmacología
2.
Int J Biol Macromol ; 167: 987-994, 2021 Jan 15.
Artículo en Inglés | MEDLINE | ID: mdl-33181215

RESUMEN

The nano-conjugation of proteins is an active area of research due to potential biomedical and nanotechnological applications. Many protein-nanoconjugates were designed for various applications, such as drug delivery, molecular imaging, and liquid biopsy etc. However, the challenges remain to ensure protein stability and to retain the conformational state of the protein intact upon nano-conjugation. In this communication we have reported the status of stability and refolding ability of Au-NP conjugated zDHFR protein. The effect of nano-conjugation of zDHFR on the thermal stability and it's refolding from thermally denatured state have been extensively studied. Zebrafish Dihydrofolate reductase (zDHFR) is an essential enzyme which acts as a crucial part in synthesis of purine, thymidylate and various amino acids in cells. We have nano-conjugated zDHFR protein with Au-nanoparticles and studies were conducted for thermally denatured Au-NP conjugated zDHFR and compared with the non-conjugated protein. Refolding experiment of heat denatured Au-NP conjugated zDHFR was carried out to check the status of refolding and the result was compared with the non-conjugated protein. Our observation reveals that nano-conjugation stabilises the zDHFR protein against thermal denaturation. Furthermore, the nano-conjugation promotes refolding process of thermally unfolded DHFR such that the yield of refolding substantially increases.


Asunto(s)
Nanoestructuras/química , Pliegue de Proteína , Replegamiento Proteico , Tetrahidrofolato Deshidrogenasa/química , Animales , Fenómenos Químicos , Expresión Génica , Oro/química , Cinética , Nanopartículas del Metal/química , Desnaturalización Proteica , Estabilidad Proteica , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Termodinámica , Pez Cebra
3.
Methods Mol Biol ; 2151: 159-172, 2020.
Artículo en Inglés | MEDLINE | ID: mdl-32452003

RESUMEN

Dihydrofolate reductase (DHFR) is an essential enzyme for nucleotide metabolism used to obtain energy and structural nucleic acids. Schistosoma mansoni has all the pathways for pyrimidine biosynthesis, which include the thymidylate cycle and, consequentially, the DHFR enzyme. Here, we describe the characterization of Schistosoma mansoni DHFR (SmDHFR) using isothermal titration calorimetry for the enzymatic activity and thermodynamic determination, also the folate analogs inhibition. Moreover, X-ray crystallography was used to determine the enzyme atomic model at 1.95 Å.


Asunto(s)
Schistosoma mansoni/enzimología , Tetrahidrofolato Deshidrogenasa/metabolismo , Animales , Calorimetría , Cristalografía por Rayos X , Pruebas de Enzimas , Ácido Fólico/análogos & derivados , Congelación , Proteínas Recombinantes/aislamiento & purificación , Proteínas Recombinantes/metabolismo , Sincrotrones , Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
4.
J Enzyme Inhib Med Chem ; 34(1): 1439-1450, 2019 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-31409157

RESUMEN

Leishmaniasis is a tropical disease found in more than 90 countries. The drugs available to treat this disease have nonspecific action and high toxicity. In order to develop novel therapeutic alternatives to fight this ailment, pteridine reductase 1 (PTR1) and dihydrofolate reductase-thymidylate synthase (DHF-TS) have been targeted, once Leishmania is auxotrophic for folates. Although PTR1 and DHFR-TS from other protozoan parasites have been studied, their homologs in Leishmania chagasi have been poorly characterized. Hence, this work describes the optimal conditions to express the recombinant LcPTR1 and LcDHFR-TS enzymes, as well as balanced assay conditions for screening. Last but not the least, we show that 2,4 diaminopyrimidine derivatives are low-micromolar competitive inhibitors of both enzymes (LcPTR1 Ki = 1.50-2.30 µM and LcDHFR Ki = 0.28-3.00 µM) with poor selectivity index. On the other hand, compound 5 (2,4-diaminoquinazoline derivative) is a selective LcPTR1 inhibitor (Ki = 0.47 µM, selectivity index = 20).


Asunto(s)
Inhibidores Enzimáticos/farmacología , Leishmania infantum/enzimología , Complejos Multienzimáticos/antagonistas & inhibidores , Oxidorreductasas/antagonistas & inhibidores , Timidilato Sintasa/antagonistas & inhibidores , Catálisis , Cromatografía de Afinidad , Clonación Molecular , Evaluación Preclínica de Medicamentos , Electroforesis en Gel de Poliacrilamida , Escherichia coli/genética , Concentración 50 Inhibidora , Complejos Multienzimáticos/genética , Complejos Multienzimáticos/aislamiento & purificación , Complejos Multienzimáticos/metabolismo , Oxidorreductasas/genética , Oxidorreductasas/aislamiento & purificación , Oxidorreductasas/metabolismo , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/metabolismo , Timidilato Sintasa/genética , Timidilato Sintasa/aislamiento & purificación , Timidilato Sintasa/metabolismo
5.
PLoS One ; 13(5): e0197173, 2018.
Artículo en Inglés | MEDLINE | ID: mdl-29787565

RESUMEN

Filariasis is a tropical disease caused by the parasitic nematodes Wuchereria bancrofti and Brugia malayi. Known inhibitors of dihydrofolate reductase (DHFR) have been previously shown to kill Brugia malayi nematodes and to inhibit Brugia malayi DHFR (BmDHFR) at nanomolar concentrations. These data suggest that BmDHFR is a potential target for the treatment of filariasis. Here, protocols for cloning, expression and purification of Wuchereria bancrofti DHFR (WbDHFR) were developed. The Uniprot entry J9F199-1 predicts a 172 amino acid protein for WbDHFR but alignment of this sequence to the previously described BmDHFR shows that this WbDHFR sequence lacks a crucial, conserved 13 amino acid loop. The presence of the loop in WbDHFR is supported by a noncanonical splicing event and the loop sequence was therefore included in the gene design. Subsequently, the KM for dihydrofolate (3.7 ± 2 µM), kcat (7.4 ± 0.6 s-1), and pH dependence of activity were determined. IC50 values of methotrexate, trimethoprim, pyrimethamine, raltitrexed, aminopterin, (-)-epicatechin gallate, (-)-epicatechin, and vitexin were measured for WbDHFR and BmDHFR. Methotrexate and structurally related aminopterin were found to be effective inhibitors of WbDHFR, with an KI of 1.2 ± 0.2 nM and 2.1 ± 0.5 nM, respectively, suggesting that repurposing of known antifolate compound may be an effective strategy to treating filariasis. Most compounds showed similar inhibition profiles toward both enzymes, suggesting that the two enzymes have important similarities in their active site environments and can be targeted with the same compound, once a successful inhibitor is identified.


Asunto(s)
Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/metabolismo , Wuchereria bancrofti/enzimología , Secuencia de Aminoácidos , Animales , Brugia Malayi/enzimología , Brugia Malayi/genética , Clonación Molecular , Inhibidores Enzimáticos/farmacología , Flavonoides/farmacología , Regulación Enzimológica de la Expresión Génica/efectos de los fármacos , Alineación de Secuencia , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Wuchereria bancrofti/genética
6.
J Phys Chem B ; 121(48): 10770-10781, 2017 12 07.
Artículo en Inglés | MEDLINE | ID: mdl-29116793

RESUMEN

We characterize the effect of specifically bound biradicals on the NMR spectra of dihydrofolate reductase from E. coli. Dynamic nuclear polarization methods enhance the signal-to-noise of solid state NMR experiments by transferring polarization from unpaired electrons of biradicals to nuclei. There has been recent interest in colocalizing the paramagnetic polarizing agents with the analyte of interest through covalent or noncovalent specific interactions. This experimental approach broadens the scope of dynamic nuclear polarization methods by offering the possibility of selective signal enhancements and the potential to work in a broad range of environments. Paramagnetic compounds can have other effects on the NMR spectroscopy of nearby nuclei, including broadening of nuclear resonances due to the proximity of the paramagnetic agent. Understanding the distance dependence of these interactions is important for the success of the technique. Here we explore paramagnetic signal quenching due to a bound biradical, specifically a biradical-derivatized trimethoprim ligand of E. coli dihydrofolate reductase. Biradical-derivatized trimethoprim has nanomolar affinity for its target, and affords strong and selective signal enhancements in dynamic nuclear polarization experiments. In this work, we show that, although the trimethoprim fragment is well ordered, the biradical (TOTAPOL) moiety is disordered when bound to the protein. The distance dependence in bleaching of NMR signal intensity allows us to detect numerous NMR signals in the protein. We present the possibility that static disorder and electron spin diffusion play roles in this observation, among other contributions. The fact that the majority of signals are observed strengthens the case for the use of high affinity or covalent radicals in dynamic nuclear polarization solid state NMR enhancement.


Asunto(s)
Resonancia Magnética Nuclear Biomolecular , Tetrahidrofolato Deshidrogenasa/química , Escherichia coli/enzimología , Ligandos , Modelos Moleculares , Estructura Molecular , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/metabolismo
7.
Protein Expr Purif ; 128: 81-5, 2016 12.
Artículo en Inglés | MEDLINE | ID: mdl-27544923

RESUMEN

Brugia malayi (B. malayi) is one of the three causative agents of lymphatic filariasis, a neglected parasitic disease. Current literature suggests that dihydrofolate reductase is a potential drug target for the elimination of B. malayi. Here we report the recombinant expression and purification of a ∼20 kDa B. malayi dihydrofolate reductase (BmDHFR). A His6-tagged construct was expressed in E. coli and purified by affinity chromatography to yield active and homogeneous enzyme for steady-state kinetic characterization and inhibition studies. The catalytic activity kcat was found to be 1.4 ± 0.1 s(-1), the Michaelis Menten constant KM for dihydrofolate 14.7 ± 3.6 µM, and the equilibrium dissociation constant KD for NADPH 25 ± 24 nM. For BmDHFR, IC50 values for a six DHFR inhibitors were determined to be 3.1 ± 0.2 nM for methotrexate, 32 ± 22 µM for trimethoprim, 109 ± 34 µM for pyrimethamine, 154 ± 46 µM for 2,4-diaminoquinazoline, 771 ± 44 µM for cycloguanil, and >20,000 µM for 2,4-diaminopyrimidine. Our findings suggest that antifolate compounds can serve as inhibitors of BmDHFR.


Asunto(s)
Brugia Malayi/genética , Expresión Génica , Proteínas del Helminto , Tetrahidrofolato Deshidrogenasa , Animales , Brugia Malayi/enzimología , Catálisis , Proteínas del Helminto/biosíntesis , Proteínas del Helminto/química , Proteínas del Helminto/genética , Proteínas del Helminto/aislamiento & purificación , Proteínas Recombinantes/biosíntesis , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/biosíntesis , Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
8.
Am J Trop Med Hyg ; 86(5): 782-8, 2012 May.
Artículo en Inglés | MEDLINE | ID: mdl-22556074

RESUMEN

Two hundred and three Plasmodium falciparum isolates from Jazan area, southwest Saudi Arabia, were typed for Pfcrt, Pfmdr1, dhps, and dhfr mutations associated with resistance to chloroquine, mefloquine, halofantrine, artemisinin, sulfadoxine-pyrimethamine, and the neutral polymorphic gene Pfg377. A large proportion (33%) of isolates harbored double mutant dhfr genotype (51I,59C,108N). However, only one isolate contained mutation dhps-437G. For Pfcrt, almost all examined isolates (163; 99%) harbored the mutant genotype (72C,73V,74I,75E,76T), whereas only 49 (31%) contained the mutant Pfmdr1 genotype (86Y,184F,1034S,1042N), 109 (66%) harbored the single mutant genotype (86N,184F,1034S,1042N), and no mutations were seen in codons 1034, 1042, and 1246. Nonetheless, three new single-nucleotide polymorphisms were detected at codons 182, 192, and 102. No differences were seen in distribution of drug resistance genes among Saudis and expatriates. There was a limited multiplicity (5%), mean number of clones (1.05), and two dominant multilocus genotypes among infected individuals in Jazan. A pattern consistent with limited cross-mating and recombination among local parasite was apparent.


Asunto(s)
Genotipo , Plasmodium falciparum/efectos de los fármacos , Plasmodium falciparum/genética , Plasmodium falciparum/aislamiento & purificación , Adolescente , Adulto , Anciano , Anciano de 80 o más Años , Antimaláricos/farmacología , Artemisininas/uso terapéutico , Niño , Preescolar , Cloroquina/uso terapéutico , Combinación de Medicamentos , Resistencia a Medicamentos/genética , Femenino , Humanos , Lactante , Masculino , Mefloquina/uso terapéutico , Proteínas de Transporte de Membrana/genética , Proteínas de Transporte de Membrana/metabolismo , Persona de Mediana Edad , Proteínas Asociadas a Resistencia a Múltiples Medicamentos/genética , Proteínas Asociadas a Resistencia a Múltiples Medicamentos/metabolismo , Mutación , Fenantrenos/uso terapéutico , Plasmodium falciparum/patogenicidad , Polimorfismo de Nucleótido Simple , Proteínas Protozoarias/genética , Proteínas Protozoarias/metabolismo , Pirimetamina/uso terapéutico , Arabia Saudita/epidemiología , Sulfadoxina/uso terapéutico , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Adulto Joven
9.
Parasitol Int ; 61(2): 324-32, 2012 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-22234170

RESUMEN

Plasmodial bifunctional dihydrofolate reductase-thymidylate synthase (DHFR-TS) is a validated antimalarial drug target. In this study, expression of the putative dhfr-ts of Plasmodium ovale rescued the DHFR chemical knockout and a TS null bacterial strain, demonstrating its DHFR and TS catalytic functions. PoDHFR-TS was expressed in Escherichia coli BL21 (DE3) and affinity purified by Methotrexate Sepharose column. Biochemical and enzyme kinetics characterizations indicated that PoDHFR-TS is similar to other plasmodial enzymes, albeit with lower catalytic activity but better tolerance of acidic pH. Importantly, the PoDHFR from Thai isolate EU266602 remains sensitive to the antimalarials pyrimethamine and cycloguanil, in contrast to P. falciparum and P. vivax isolates where resistance to these drugs is widespread.


Asunto(s)
Antimaláricos/farmacología , Antagonistas del Ácido Fólico/farmacología , Complejos Multienzimáticos/genética , Plasmodium ovale/enzimología , Tetrahidrofolato Deshidrogenasa/genética , Timidilato Sintasa/genética , Secuencia de Aminoácidos , Clonación Molecular , Escherichia coli/genética , Escherichia coli/metabolismo , Prueba de Complementación Genética , Concentración de Iones de Hidrógeno , Cinética , Datos de Secuencia Molecular , Complejos Multienzimáticos/antagonistas & inhibidores , Complejos Multienzimáticos/aislamiento & purificación , Complejos Multienzimáticos/metabolismo , Plasmodium ovale/genética , Proguanil/farmacología , Proteínas Protozoarias/antagonistas & inhibidores , Proteínas Protozoarias/genética , Proteínas Protozoarias/aislamiento & purificación , Proteínas Protozoarias/metabolismo , Pirimetamina/farmacología , Alineación de Secuencia , Análisis de Secuencia de ADN , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/metabolismo , Timidilato Sintasa/antagonistas & inhibidores , Timidilato Sintasa/aislamiento & purificación , Timidilato Sintasa/metabolismo , Triazinas/farmacología
10.
Nat Chem Biol ; 8(3): 246-52, 2012 Jan 15.
Artículo en Inglés | MEDLINE | ID: mdl-22246400

RESUMEN

Signal transduction, regulatory processes and pharmaceutical responses are highly dependent upon ligand residence times. Gaining insight into how physical factors influence residence times (1/k(off)) should enhance our ability to manipulate biological interactions. We report experiments that yield structural insight into k(off) involving a series of eight 2,4-diaminopyrimidine inhibitors of dihydrofolate reductase whose binding affinities vary by six orders of magnitude. NMR relaxation-dispersion experiments revealed a common set of residues near the binding site that undergo a concerted millisecond-timescale switching event to a previously unidentified conformation. The rate of switching from ground to excited conformations correlates exponentially with the binding affinity K(i) and k(off), suggesting that protein dynamics serves as a mechanical initiator of ligand dissociation within this series and potentially for other macromolecule-ligand systems. Although the forward rate of conformational exchange, k(conf,forward), is faster than k(off), the use of the ligand series allowed for connections to be drawn between kinetic events on different timescales.


Asunto(s)
Inhibidores Enzimáticos/farmacología , Pirimidinas/farmacología , Tetrahidrofolato Deshidrogenasa/metabolismo , Termodinámica , Inhibidores Enzimáticos/química , Escherichia coli/enzimología , Ligandos , Modelos Moleculares , Estructura Molecular , Pirimidinas/síntesis química , Pirimidinas/química , Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
11.
Biochemistry ; 50(32): 7045-56, 2011 Aug 16.
Artículo en Inglés | MEDLINE | ID: mdl-21744813

RESUMEN

Dihydrofolate reductase from Mycobacterium tuberculosis (MtDHFR) catalyzes the NAD(P)H-dependent reduction of dihydrofolate, yielding NAD(P)(+) and tetrahydrofolate, the primary one-carbon unit carrier in biology. Tetrahydrofolate needs to be recycled so that reactions involved in dTMP synthesis and purine metabolism can be maintained. Previously, steady-state studies revealed that the chemical step significantly contributes to the steady-state turnover number, but that a step after the chemical step was likely limiting the reaction rate. Here, we report the first pre-steady-state investigation of the kinetic sequence of the MtDHFR aiming to identify kinetic intermediates, and the identity of the rate-limiting steps. This kinetic analysis suggests a kinetic sequence comprising two parallel pathways with a rate-determining product release. Although product release is likely occurring in a random fashion, there is a slight preference for the release of THF first, a kinetic sequence never observed for a wild-type dihydrofolate reductase of any organism studied to date. Temperature studies were conducted to determine the magnitude of the energetic barrier posed by the chemical step, and the pH dependence of the chemical step was studied, demonstrating an acidic shift from the pK(a) observed at the steady state. The rate constants obtained here were combined with the activation energy for the chemical step to compare energy profiles for each kinetic sequence. The two parallel pathways are discussed, as well as their implications for the catalytic cycle of this enzyme.


Asunto(s)
Mycobacterium tuberculosis/metabolismo , Tetrahidrofolato Deshidrogenasa/metabolismo , Biocatálisis , Escherichia coli/genética , Cinética , Cadenas de Markov , Unión Proteica , Proteínas Recombinantes/aislamiento & purificación , Proteínas Recombinantes/metabolismo , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
12.
Chem Biodivers ; 8(3): 440-53, 2011 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-21404427

RESUMEN

Two classes of graph-theoretic molecular descriptors, viz., topological indices (TIs) and atom pairs (APs), have been used to derive high-quality quantitative structure-activity relationships (QSARs) for inhibitors of dihydrofolate reductases (DHFRs) isolated from the wild and four mutant strains of Plasmodium falciparum. Of the three methods used for QSAR formulation, viz., principal-components regression (PCR), partial least squares (PLS), and ridge regression (RR), the RR method outperformed the other two. Cohen's kappa values, based on the overlap of significant and insignificant structural descriptors calculated for the QSAR development, show that DHFR from the wild strain is substantially different from the four mutant strains. The differential QSAR approach reported in this study can be used in protocols for the development of drugs to combat drug-resistant pathogens arising continuously in nature due to mutations. The pairwise kappa values in conjunction with appropriate drug targets and their corresponding set of ligands may be a useful tool in gauging the evolving mutual similarities and dissimilarities of pathogenic organisms from purely computed mathematical descriptors of the ligands.


Asunto(s)
Antimaláricos/farmacología , Inhibidores Enzimáticos/farmacología , Antagonistas del Ácido Fólico/farmacología , Plasmodium falciparum/clasificación , Plasmodium falciparum/enzimología , Tetrahidrofolato Deshidrogenasa/metabolismo , Antimaláricos/síntesis química , Antimaláricos/química , Inhibidores Enzimáticos/síntesis química , Inhibidores Enzimáticos/química , Antagonistas del Ácido Fólico/síntesis química , Antagonistas del Ácido Fólico/química , Ligandos , Malaria Falciparum/tratamiento farmacológico , Estructura Molecular , Mutación , Plasmodium falciparum/efectos de los fármacos , Relación Estructura-Actividad Cuantitativa , Análisis de Regresión , Estereoisomerismo , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
13.
Appl Biochem Biotechnol ; 162(7): 1834-46, 2010 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-20393885

RESUMEN

Recent reports describe the inhibition of human dihydrofolate reductase (hDHFR) by natural tea polyphenols. This finding could explain the epidemiologic data on their prophylactic effects for certain forms of cancer, and it raises the possibility that natural and synthetic polyphenols could be used in cancer chemotherapy. In order to obtain larger quantities of hDHFR to support structural studies, we established and validated a baculovirus system for the expression of this protein in Bombyx mori chrysalides (pupae of the silkworm enclosed in a cocoon). To isolate the expressed protein, whole infected pupae were homogenized, and the expressed protein was purified by affinity chromatography. Here, we demonstrate the efficient expression of recombinant hDHFR in this model and report that this newly expressed protein has high enzymatic activity and kinetic properties similar to those previously reported for recombinant hDHFR expressed in Escherichia coli. The purified protein showed dissociation constants for the binding of natural polyphenols similar to that expressed in E. coli, which ensures its usage as a new tool for further structural studies. Although the hDHFR yield per individual was found to be lower in the chrysalides than in the larvae of B. mori, the former system was optimized as a model for the scaled-up production of recombinant proteins. Expression of proteins in chrysalides (instead of larvae) could offer important advantages from both economic and biosecurity aspects.


Asunto(s)
Bombyx/genética , Ingeniería Genética , Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Animales , Baculoviridae/genética , Baculoviridae/fisiología , Bombyx/crecimiento & desarrollo , Bombyx/metabolismo , Bombyx/virología , Flavonoides/metabolismo , Vectores Genéticos/genética , Vectores Genéticos/fisiología , Humanos , Cinética , Larva/genética , Larva/crecimiento & desarrollo , Larva/metabolismo , Larva/virología , Fenoles/metabolismo , Polifenoles , Pupa/genética , Pupa/crecimiento & desarrollo , Pupa/metabolismo , Pupa/virología , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/aislamiento & purificación , Proteínas Recombinantes/metabolismo , Especificidad por Sustrato , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/metabolismo
14.
J Biochem ; 147(4): 591-9, 2010 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-20040594

RESUMEN

Enzymes from organisms living in deep-sea are thought to have characteristic pressure-adaptation mechanisms in structure and function. To better understand these mechanisms in dihydrofolate reductase (DHFR), an essential enzyme in living cells, we cloned, overexpressed and purified four new DHFRs from the deep-sea bacteria Shewanella violacea (svDHFR), Photobacterium profundum (ppDHFR), Moritella yayanosii (myDHFR) and Moritella japonica (mjDHFR), and compared their structure and function with those of Escherichia coli DHFR (ecDHFR). These deep-sea DHFRs showed 33-56% primary structure identity to ecDHFR while far-ultraviolet circular dichroism and fluorescence spectra suggested that their secondary and tertiary structures were not largely different. The optimal temperature and pH for deep-sea DHFRs activity were lower than those of ecDHFR and different from each other. Deep-sea DHFRs kinetic parameters K(m) and k(cat) were larger than those of ecDHFR, resulting in 1.5-2.8-fold increase of k(cat)/K(m) except for mjDHFR which had a 28-fold decrease. The enzyme activity of ppDHFR and mjDHFR (moderate piezophilic bacteria) as well as ecDHFR decreased as pressure increased, while svDHFR and myDHFR (piezophilic bacteria) showed a significant tolerance to pressure. These results suggest that DHFRs from deep-sea bacteria possess specific enzymatic properties adapted to their life under high pressure.


Asunto(s)
Proteínas Bacterianas/química , Proteínas Bacterianas/metabolismo , Bacilos Gramnegativos Anaerobios Facultativos/enzimología , Bacilos Gramnegativos Anaerobios Facultativos/genética , Agua de Mar/microbiología , Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/metabolismo , Adaptación Biológica , Secuencia de Aminoácidos , Presión Atmosférica , Proteínas Bacterianas/genética , Proteínas Bacterianas/aislamiento & purificación , Clonación Molecular , Escherichia coli/enzimología , Escherichia coli/genética , Genes Bacterianos , Concentración de Iones de Hidrógeno , Cinética , Datos de Secuencia Molecular , Moritella/enzimología , Moritella/genética , Océanos y Mares , Photobacterium/enzimología , Photobacterium/genética , Conformación Proteica , Proteínas Recombinantes de Fusión/química , Proteínas Recombinantes de Fusión/aislamiento & purificación , Proteínas Recombinantes de Fusión/metabolismo , Alineación de Secuencia , Análisis de Secuencia de ADN , Homología de Secuencia de Aminoácido , Shewanella/enzimología , Shewanella/genética , Temperatura , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
15.
Biochemistry ; 48(19): 4100-8, 2009 May 19.
Artículo en Inglés | MEDLINE | ID: mdl-19323450

RESUMEN

There is a significant need for new therapeutics to treat infections caused by the biodefense agent Bacillus anthracis. In pursuit of drug discovery against this organism, we have developed novel propargyl-linked inhibitors that target the essential enzyme dihydrofolate reductase (DHFR) from B. anthracis. Previously, we reported an initial series of these inhibitors and a high-resolution crystal structure of the ternary complex of the enzyme bound to its cofactor and one of the most potent inhibitors, UCP120B [Beierlein, J., Frey, K., Bolstad, D., Pelphrey, P., Joska, T., Smith, A., Priestley, N., Wright, D., and Anderson, A. (2008) J. Med. Chem. 51, 7532-7540]. Herein, we describe a three-dimensional solution structure of the ternary complex as determined by NMR. A comparison of this solution structure to the crystal structure reveals a general conservation of the DHFR fold and cofactor interactions as well as differences in the location of an active site helix and specific ligand interactions. In addition to data for the fully assigned ternary complex, data for the binary (enzyme-cofactor) complex were collected, providing chemical shift comparisons and revealing perturbations in residues that accommodate ligand binding. Dynamics of the protein, measured using (15)N T(1) and T(2) relaxation times and {(1)H}-(15)N heteronuclear NOEs, reveal residue flexibility at the active site that explains enzyme inhibition and structure-activity relationships for two different series of these propargyl-linked inhibitors. The information obtained from the solution structure regarding active site flexibility will be especially valuable in the design of inhibitors with increased potency.


Asunto(s)
Bacillus anthracis/enzimología , Inhibidores Enzimáticos/química , Tetrahidrofolato Deshidrogenasa/química , Tetrahidrofolato Deshidrogenasa/metabolismo , Secuencia de Aminoácidos , Sitios de Unión , Simulación por Computador , Cristalización , Cristalografía por Rayos X , Enlace de Hidrógeno , Concentración 50 Inhibidora , Ligandos , Modelos Moleculares , Datos de Secuencia Molecular , NADP/química , Unión Proteica , Conformación Proteica , Estructura Secundaria de Proteína , Homología de Secuencia de Aminoácido , Relación Estructura-Actividad , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
16.
J Med Chem ; 51(23): 7532-40, 2008 Dec 11.
Artículo en Inglés | MEDLINE | ID: mdl-19007108

RESUMEN

Bacillus anthracis, the causative agent of anthrax, poses a significant biodefense danger. Serious limitations in approved therapeutics and the generation of resistance have produced a compelling need for new therapeutic agents against this organism. Bacillus anthracis is known to be insensitive to the clinically used antifolate, trimethoprim, because of a lack of potency against the dihydrofolate reductase enzyme. Herein, we describe a novel lead series of B. anthracis dihydrofolate reductase inhibitors characterized by an extended trimethoprim-like scaffold. The best lead compound adds only 22 Da to the molecular weight and is 82-fold more potent than trimethoprim. An X-ray crystal structure of this lead compound bound to B. anthracis dihydrofolate reductase in the presence of NADPH was determined to 2.25 A resolution. The structure reveals several features that can be exploited for further development of this lead series.


Asunto(s)
Bacillus anthracis/enzimología , Inhibidores Enzimáticos , Tetrahidrofolato Deshidrogenasa/efectos de los fármacos , Secuencia de Aminoácidos , Antibacterianos/síntesis química , Antibacterianos/química , Antibacterianos/farmacología , Bacillus anthracis/efectos de los fármacos , Sitios de Unión/efectos de los fármacos , Cristalografía por Rayos X , Relación Dosis-Respuesta a Droga , Diseño de Fármacos , Inhibidores Enzimáticos/síntesis química , Inhibidores Enzimáticos/química , Inhibidores Enzimáticos/farmacología , Humanos , Ligandos , Pruebas de Sensibilidad Microbiana , Modelos Moleculares , Datos de Secuencia Molecular , Estructura Molecular , Peso Molecular , Proteínas Recombinantes/biosíntesis , Proteínas Recombinantes/efectos de los fármacos , Proteínas Recombinantes/aislamiento & purificación , Alineación de Secuencia , Estereoisomerismo , Relación Estructura-Actividad , Tetrahidrofolato Deshidrogenasa/biosíntesis , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
17.
Mol Biochem Parasitol ; 154(1): 1-5, 2007 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-17451822

RESUMEN

Plasmodium falciparum, the protozoan that causes the most lethal form of human malaria, has been controlled principally by two safe, affordable drugs, chloroquine and sulfadoxine-pyrimethamine (SP). Studies in the laboratory and in the field have demonstrated that resistance to SP depends on non-synonymous point mutations in the dihydrofolate reductase (DHFR), and dihydropteroate synthase (DHPS) coding regions. Parasites that carry dhfr genes with 3 or 4 point mutations (51I/59R/108N triple mutation or 51I/59R/108N/164L quadruple mutation) are resistant to pyrimethamine in vitro and patients infected with these parasites respond poorly to SP treatment. The wide spread of these pyrimethamine-resistant alleles demonstrates the increased fitness over drug-sensitive alleles in the presence of the drug. However, it is not clear whether these alleles might reduce the fitness of parasites in the absence of drug pressure. As a first step, we compared the kinetic properties of the wild type, and three mutant alleles to determine whether the native DHFR-thymidylate synthase form of the mutant proteins showed compromised activity in vitro. The mutant enzymes had K(m) values for their substrate, dihydrofolate that were significantly lower than the wild type, k(cat) values in the same range as the wild type enzyme, and k(cat)/K(m) values higher than wild type. In contrast, the K(m) values for the NADPH cofactor were higher than wild type for the mutant enzymes. These observations suggest that the fitness of these parasites may not be compromised relative to those that carry the wild type allele, even without sustained SP drug pressure.


Asunto(s)
Antimaláricos/farmacología , Farmacorresistencia Microbiana , Plasmodium falciparum/efectos de los fármacos , Plasmodium falciparum/enzimología , Pirimetamina/farmacología , Tetrahidrofolato Deshidrogenasa/metabolismo , Animales , Ácido Fólico/análogos & derivados , Ácido Fólico/metabolismo , Cinética , NADP/metabolismo , Mutación Puntual , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
18.
Proc Natl Acad Sci U S A ; 103(49): 18493-8, 2006 Dec 05.
Artículo en Inglés | MEDLINE | ID: mdl-17130456

RESUMEN

Hydrogen atoms play a central role in many biochemical processes yet are difficult to visualize by x-ray crystallography. Spallation neutron sources provide a new arena for protein crystallography with TOF measurements enhancing data collection efficiency and allowing hydrogen atoms to be located in smaller crystals of larger biological macromolecules. Here we report a 2.2-A resolution neutron structure of Escherichia coli dihydrofolate reductase (DHFR) in complex with methotrexate (MTX). Neutron data were collected on a 0.3-mm(3) D(2)O-soaked crystal at the Los Alamos Neutron Scattering Center. This study provides an example of using spallation neutrons to study protein dynamics, to identify protonation states directly from nuclear density maps, and to analyze solvent structure. Our structure reveals that the occluded loop conformation [monomer (mon.) A] of the DHFR.MTX complex undergoes greater H/D exchange compared with the closed-loop conformer (mon. B), partly because the Met-20 and beta(F-G) loops readily exchange in mon. A. The eight-stranded beta sheet of both DHFR molecules resists H/D exchange more than the helices and loops. However, the C-terminal strand, betaH, in mon. A is almost fully exchanged. Several D(2)Os form hydrogen bonds with exchanged amides. At the active site, the N1 atom of MTX is protonated and thus charged when bound to DHFR. Several D(2)Os are observed at hydrophobic surfaces, including two pockets near the MTX-binding site. A previously unidentified D(2)O hydrogen bonds with the catalytic D27 in mon. B, stabilizing its negative charge.


Asunto(s)
Proteínas de Escherichia coli/química , Metotrexato/química , Difracción de Neutrones , Tetrahidrofolato Deshidrogenasa/química , Sitios de Unión , Cristalización , Medición de Intercambio de Deuterio , Proteínas de Escherichia coli/metabolismo , Metotrexato/metabolismo , Protones , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/metabolismo , Termodinámica
19.
Nat Struct Mol Biol ; 13(5): 408-13, 2006 May.
Artículo en Inglés | MEDLINE | ID: mdl-16648861

RESUMEN

Isoniazid is a key drug used in the treatment of tuberculosis. Isoniazid is a pro-drug, which, after activation by the katG-encoded catalase peroxidase, reacts nonenzymatically with NAD(+) and NADP(+) to generate several isonicotinoyl adducts of these pyridine nucleotides. One of these, the acyclic 4S isomer of isoniazid-NAD, targets the inhA-encoded enoyl-ACP reductase, an enzyme essential for mycolic acid biosynthesis in Mycobacterium tuberculosis. Here we show that the acyclic 4R isomer of isoniazid-NADP inhibits the M. tuberculosis dihydrofolate reductase (DHFR), an enzyme essential for nucleic acid synthesis. This biologically relevant form of the isoniazid adduct is a subnanomolar bisubstrate inhibitor of M. tuberculosis DHFR. Expression of M. tuberculosis DHFR in Mycobacterium smegmatis mc(2)155 protects cells against growth inhibition by isoniazid by sequestering the drug. Thus, M. tuberculosis DHFR is the first new target for isoniazid identified in the last decade.


Asunto(s)
Antagonistas del Ácido Fólico/farmacología , Isoniazida/farmacología , Mycobacterium tuberculosis/efectos de los fármacos , Mycobacterium tuberculosis/enzimología , Tetrahidrofolato Deshidrogenasa/metabolismo , Proliferación Celular , Clonación Molecular , Cristalografía por Rayos X , Antagonistas del Ácido Fólico/química , Antagonistas del Ácido Fólico/metabolismo , Expresión Génica , Isoniazida/química , Isoniazida/metabolismo , Modelos Moleculares , Mycobacterium tuberculosis/citología , Mycobacterium tuberculosis/genética , NADP/química , NADP/metabolismo , Profármacos/química , Profármacos/metabolismo , Profármacos/farmacología , Unión Proteica , Estructura Terciaria de Proteína , Tetrahidrofolato Deshidrogenasa/genética , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación
20.
J Antimicrob Chemother ; 57(6): 1083-92, 2006 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-16585130

RESUMEN

OBJECTIVES: Elucidation of the mechanism of action of epigallocatechin-3-gallate (EGCG) against Candida albicans and demonstration of the connection between its antifolate activity and other metabolic pathways involved in C. albicans survival are the major objectives of this study. METHODS: C. albicans ATCC 10231 and 12 clinical isolates were used. MICs of EGCG against C. albicans were determined according to NCCLS. C. albicans dihydrofolate reductase (DHFR) was purified using methotrexate-affinity chromatography and its inhibition by EGCG studied by spectroscopic techniques. Synergy experiments were performed by chequerboard tests by combining eight doubling concentrations of EGCG with another eight dilutions of azole compounds or terbinafine. Reversion experiments with leucovorin or S-adenosylmethionine were carried out, and the content of ergosterol was determined by a spectrophotometric method. RESULTS: EGCG is an efficient inhibitor of C. albicans DHFR (K(i) = 0.7 microM). As with other antifolates, the effects of EGCG on C. albicans can be highly attenuated by growing the cells in the presence of leucovorin. EGCG showed synergy with inhibitors of the ergosterol biosynthesis pathway in C. albicans such as azole antifungals and terbinafine. We demonstrate that by disturbing the folate metabolism, EGCG can inhibit ergosterol production. The molecular connection between the pathways is discussed. CONCLUSIONS: EGCG acts as an antifolate compound on C. albicans, disturbing its folic acid metabolism. This effect could explain the molecular mechanism for the synergy between EGCG and azole antifungals, and could represent a starting point for therapies involving antifolates and azoles used as an alternative for the treatment of C. albicans infections.


Asunto(s)
Antifúngicos/farmacología , Candida albicans/efectos de los fármacos , Catequina/análogos & derivados , Ergosterol/biosíntesis , Antagonistas del Ácido Fólico/farmacología , Ácido Fólico/metabolismo , Azoles/farmacología , Candida albicans/aislamiento & purificación , Candida albicans/metabolismo , Candidiasis/microbiología , Catequina/farmacología , Sinergismo Farmacológico , Inhibidores Enzimáticos/farmacología , Proteínas Fúngicas/aislamiento & purificación , Proteínas Fúngicas/metabolismo , Leucovorina/farmacología , Pruebas de Sensibilidad Microbiana , Modelos Biológicos , Naftalenos/farmacología , S-Adenosilmetionina/metabolismo , Análisis Espectral , Terbinafina , Tetrahidrofolato Deshidrogenasa/aislamiento & purificación , Tetrahidrofolato Deshidrogenasa/metabolismo , Complejo Vitamínico B/farmacología
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