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1.
Bioorg Med Chem Lett ; 30(2): 126792, 2020 01 15.
Artigo em Inglês | MEDLINE | ID: mdl-31757668

RESUMO

Inosine-5'-monophosphate dehydrogenase (IMPDH) is a rate-limiting enzyme involved in nucleotide biosynthesis. Because of its critical role in purine biosynthesis, IMPDH is a drug design target for immunosuppressive, anticancer, antiviral and antimicrobial chemotherapy. In this study, we use mass spectrometry and X-ray crystallography to show that the inhibitor 6-Cl-purine ribotide forms a covalent adduct with the Cys-341 residue of Mycobacterium thermoresistibile IMPDH.


Assuntos
Proteínas de Bactérias/antagonistas & inibidores , Inibidores Enzimáticos/química , IMP Desidrogenase/antagonistas & inibidores , Mycobacteriaceae/enzimologia , Proteínas de Bactérias/metabolismo , Sítios de Ligação , Cristalografia por Raios X , Desenho de Fármacos , Inibidores Enzimáticos/síntese química , Inibidores Enzimáticos/metabolismo , IMP Desidrogenase/metabolismo , Simulação de Dinâmica Molecular , Estrutura Terciária de Proteína , Nucleotídeos de Purina/síntese química , Nucleotídeos de Purina/química , Nucleotídeos de Purina/metabolismo
2.
J Antibiot (Tokyo) ; 72(12): 855-864, 2019 12.
Artigo em Inglês | MEDLINE | ID: mdl-31554959

RESUMO

Nucleoside antibiotics possess various biological activities such as antibacterial, antifungal, anticancer, and herbicidal activities. RIKEN scientists contributed to this area of research with two representative antifungal nucleoside antibiotics, blasticidin S and polyoxin. Blasticidin S was the first antibiotic exploited in agriculture worldwide. Meanwhile, the polyoxins discovered by Isono and Suzuki are still used globally as an agricultural antibiotic. In this review article, the research on nucleoside antibiotics mainly done by Isono and his collaborators is summarized from the discovery of polyoxin to subsequent investigations.


Assuntos
Antibacterianos/química , Antibacterianos/farmacologia , Adenosina/análogos & derivados , Adenosina/química , Adenosina/farmacologia , Aminoglicosídeos/química , Aminoglicosídeos/farmacologia , Azepinas/química , Azepinas/farmacologia , Parede Celular/efeitos dos fármacos , Parede Celular/metabolismo , Descoberta de Drogas , Fungicidas Industriais/química , Fungicidas Industriais/farmacologia , Guanina/análogos & derivados , Guanina/química , Guanina/farmacologia , Nucleosídeos/química , Nucleosídeos/farmacologia , Inibidores de Proteínas Quinases/química , Inibidores de Proteínas Quinases/farmacologia , Nucleotídeos de Purina/química , Nucleotídeos de Purina/farmacologia , Nucleosídeos de Pirimidina/química , Nucleosídeos de Pirimidina/metabolismo , Nucleosídeos de Pirimidina/farmacologia , Ribonucleosídeos/química , Ribonucleosídeos/farmacologia , Uridina/análogos & derivados , Uridina/química , Uridina/farmacologia
3.
Biophys Chem ; 254: 106261, 2019 11.
Artigo em Inglês | MEDLINE | ID: mdl-31522070

RESUMO

The study of the pressure response by NMR spectroscopy provides information on the thermodynamics of conformational equilibria in proteins and nucleic acids. For obtaining a database for expected pressure effects on free nucleotides and nucleotides bound in macromolecular complexes, the pressure response of 1H chemical shifts and J-coupling constants of the purine 5'-ribonucleotides AMP, ADP, ATP, GMP, GDP, and GTP were studied in the absence and presence of Mg2+-ions. Experiments are supported by quantum-chemical calculations of populations and chemical shift differences in order to corroborate structural interpretations and to estimate missing data for AMP. The preference of the ribose S puckering obtained from the analysis of the experimental J-couplings is also confirmed by the calculations. In addition, the pressure response of the non-hydrolysable GTP analogues GppNHp, GppCH2p, and GTPγS was examined within a pressure range up to 200 MPa. As observed earlier for 31P NMR chemical shifts of these nucleotides the pressure dependence of chemical shifts is clearly non-linear in most cases. In di- and tri-phospho nucleosides, the resonances of the two protons bound to the ribose 5' carbon are non-equivalent and can be observed separately. The gg-rotamer at C4'- C5' bond is strongly preferred and the downfield shifted resonance can be assigned to the H5″ proton in the nucleotides. In contrast, in adenosine itself the frequencies of the two resonances are interchanged.


Assuntos
Espectroscopia de Prótons por Ressonância Magnética , Nucleotídeos de Purina/química , Magnésio/química , Pressão
4.
J Med Chem ; 62(7): 3677-3695, 2019 04 11.
Artigo em Inglês | MEDLINE | ID: mdl-30895781

RESUMO

Cluster of differentiation 73 (CD73) converts adenosine 5'-monophosphate to immunosuppressive adenosine, and its inhibition was proposed as a new strategy for cancer treatment. We synthesized 5'- O-[(phosphonomethyl)phosphonic acid] derivatives of purine and pyrimidine nucleosides, which represent nucleoside diphosphate analogues, and compared their CD73 inhibitory potencies. In the adenine series, most ribose modifications and 1-deaza and 3-deaza were detrimental, but 7-deaza was tolerated. Uracil substitution with N3-methyl, but not larger groups, or 2-thio, was tolerated. 1,2-Diphosphono-ethyl modifications were not tolerated. N4-(Aryl)alkyloxy-cytosine derivatives, especially with bulky benzyloxy substituents, showed increased potency. Among the most potent inhibitors were the 5'- O-[(phosphonomethyl)phosphonic acid] derivatives of 5-fluorouridine (4l), N4-benzoyl-cytidine (7f), N4-[ O-(4-benzyloxy)]-cytidine (9h), and N4-[ O-(4-naphth-2-ylmethyloxy)]-cytidine (9e) ( Ki values 5-10 nM at human CD73). Selected compounds tested at the two uridine diphosphate-activated P2Y receptor subtypes showed high CD73 selectivity, especially those with large nucleobase substituents. These nucleotide analogues are among the most potent CD73 inhibitors reported and may be considered for development as parenteral drugs.


Assuntos
5'-Nucleotidase/antagonistas & inibidores , Inibidores Enzimáticos/química , Inibidores Enzimáticos/farmacologia , Nucleotídeos de Purina/química , Nucleotídeos de Purina/farmacologia , Nucleotídeos de Pirimidina/química , Nucleotídeos de Pirimidina/farmacologia , Animais , Proteínas Ligadas por GPI/antagonistas & inibidores , Humanos , Ratos , Relação Estrutura-Atividade
5.
J Recept Signal Transduct Res ; 38(2): 101-111, 2018 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-29402169

RESUMO

Purine nucleotides transduce cell membrane receptor responses and modulate ion channel activity. This is accomplished through conformational change in the structure of nucleotides and cell membrane associated proteins. The aim of this study is to enhance our understanding of nucleotide dependence in regard to signal transduction events, drug action and pharmacological promiscuity. Nucleotides and ligand structures regulating Gα protein subunits, voltage- and ligand-gated ion channels are investigated for molecular similarity using a computational program. Results differentiate agonist and antagonist structures, identify molecular similarity within nucleotide and ligand structures and demonstrate the potential of ligands to regulate nucleotide conformational change. Relative molecular similarity within nucleotides and the ligands of the major receptor classes provides insight into mechanisms of receptor and ion channel regulation. The nucleotide template model has some merit as an initial screening tool in the study and comparison of drug and hormone structures.


Assuntos
Células/metabolismo , Hormônios/metabolismo , Neurotransmissores/metabolismo , Preparações Farmacêuticas/metabolismo , Nucleotídeos de Purina/química , Transdução de Sinais , Trifosfato de Adenosina/química , Trifosfato de Adenosina/metabolismo , Animais , Proteínas de Ligação ao GTP/química , Proteínas de Ligação ao GTP/metabolismo , Ligantes , Modelos Moleculares , Subunidades Proteicas/química , Subunidades Proteicas/metabolismo , Nucleotídeos de Purina/metabolismo
6.
J Biomol Struct Dyn ; 35(10): 2136-2154, 2017 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-27376462

RESUMO

Thymidylate kinase (TMK) is a key enzyme for the synthesis of DNA, making it an important target for the development of anticancer, antibacterial, and antiparasitic drugs. TMK homologs exhibit significant variations in sequence, residue conformation, substrate specificity, and oligomerization mode. However, the influence of sequence evolution and conformational dynamics on its quaternary structure and function has not been studied before. Based on extensive sequence and structure analyses, our study detected several non-conserved residues which are linked by co-evolution and are implicated in the observed variations in flexibility, oligomeric assembly, and substrate specificity among the homologs. These lead to differences in the pattern of interactions at the active site in TMKs of different specificity. The method was further tested on TMK from Sulfolobus tokodaii (StTMK) which has substantial differences in sequence and structure compared to other TMKs. Our analyses pointed to a more flexible dTMP-binding site in StTMK compared to the other homologs. Binding assays proved that the protein can accommodate both purine and pyrimidine nucleotides at the dTMP binding site with comparable affinity. Additionally, the residues responsible for the narrow specificity of Brugia malayi TMK, whose three-dimensional structure is unavailable, were detected. Our study provides a residue-level understanding of the differences observed among TMK homologs in previous experiments. It also illustrates the correlation among sequence evolution, conformational dynamics, oligomerization mode, and substrate recognition in TMKs and detects co-evolving residues that affect binding, which should be taken into account while designing novel inhibitors.


Assuntos
Proteínas Arqueais/química , Brugia Malayi/química , Proteínas de Helminto/química , Núcleosídeo-Fosfato Quinase/química , Nucleotídeos de Purina/química , Nucleotídeos de Pirimidina/química , Sulfolobus/química , Sequência de Aminoácidos , Animais , Proteínas Arqueais/metabolismo , Sítios de Ligação , Brugia Malayi/enzimologia , Cristalografia por Raios X , Proteínas de Helminto/metabolismo , Humanos , Cinética , Simulação de Dinâmica Molecular , Núcleosídeo-Fosfato Quinase/metabolismo , Ligação Proteica , Conformação Proteica em alfa-Hélice , Conformação Proteica em Folha beta , Domínios e Motivos de Interação entre Proteínas , Multimerização Proteica , Nucleotídeos de Purina/metabolismo , Nucleotídeos de Pirimidina/metabolismo , Alinhamento de Sequência , Homologia Estrutural de Proteína , Especificidade por Substrato , Sulfolobus/enzimologia , Termodinâmica
7.
Chemistry ; 23(28): 6706-6716, 2017 May 17.
Artigo em Inglês | MEDLINE | ID: mdl-27960050

RESUMO

A description and history of the role that 8-oxo-7,8-dihydroadenine (8-oxoAde) and 8-oxo-7,8-dihydroadenosine (8-oxoA) have in various fields has been compiled. This Review focusses on 1) the formation of this oxidatively generated modification in RNA, its interactions with other biopolymers, and its potential role in the development/progression of disease; 2) the independent synthesis and incorporation of this modified nucleoside into oligonucleotides of RNA to display the progress that has been made in establishing its behavior in biologically relevant systems; 3) reported synthetic routes, which date back to 1890, along with the progress that has been made in the total synthesis of the nucleobase, nucleoside, and their corresponding derivatives; and 4) the isolation, total synthesis, and biological activity of natural products containing these moieties as the backbone. The current state of research regarding this oxidatively generated lesion as well as its importance in the context of RNA, natural products, and potential as drug derivatives is illustrated using all available examples reported to date.


Assuntos
Adenina/análogos & derivados , Adenosina/análogos & derivados , Produtos Biológicos/química , RNA/química , Adenina/síntese química , Adenina/química , Adenosina/síntese química , Adenosina/química , Produtos Biológicos/síntese química , Oxirredução , Nucleotídeos de Purina/química , Espectrofotometria
8.
Curr Med Chem ; 23(28): 3118-3135, 2016.
Artigo em Inglês | MEDLINE | ID: mdl-27356543

RESUMO

In this review, we first highlighted on C-methyl-branched nucleosides and nucleotides approved as anti-hepatitis C infection (HCV) drugs, their mechanism of action and recent progress in the development of new clinical candidates. Then, we report on our attempt to develop several C-methyl nucleosides/tides potentially useful for treatment of various diseases such cancer, pain, epilepsy and glaucoma. Design, synthesis and pharmacological screening of 1'-C-, 2'-C-, 3'-C-methyladenosine or other purine/pyrimidine nucleosides allowed us to discover some promising new molecules. 3'-C-Methyladenosine showed antitumor activity against several human tumor cell lines. We have investigated the mechanism of action of 3;-C-methyladenosine that proved to be an effective inhibitor of ribonucleotide reductase. Moreover, we will also summarize the chemical and biological properties of some of the recent N6-substituted and 5', N6-disubstituted 2'-C-methyladenosine derivatives that were synthetized in our laboratory and evaluated as A1 adenosine receptor agonists. 2-Chloro-2'- C-methyl-N6-cyclopentyladenosine (2'-Me-CCPA), 5'-chloro-5'-deoxy-N6-(±)-(endo-norborn- 2-yl)adenosine (5'Cl5'd-(±)-ENBA) and 2'-C-methyl-5'-chloro-5'-deoxy-N6-(±)-(endonorborn- 2-yl)adenosine (2'-Me-5'Cl5'd-(±)-ENBA) displayed high hA1AR affinity and selectivity. 2'-Me-CCPA and 5'Cl5'd-(±)-ENBA showed significant analgesic properties.


Assuntos
Antineoplásicos/química , Nucleotídeos de Purina/química , Adenosina/análogos & derivados , Adenosina/química , Adenosina/uso terapêutico , Agonistas do Receptor A1 de Adenosina/química , Agonistas do Receptor A1 de Adenosina/farmacologia , Agonistas do Receptor A1 de Adenosina/uso terapêutico , Antineoplásicos/uso terapêutico , Hepacivirus/efeitos dos fármacos , Hepacivirus/metabolismo , Hepatite C/tratamento farmacológico , Hepatite C/virologia , Humanos , Simulação de Acoplamento Molecular , Mieloma Múltiplo/tratamento farmacológico , Nucleotídeos de Purina/farmacologia , Nucleotídeos de Purina/uso terapêutico , Receptor A1 de Adenosina/química , Receptor A1 de Adenosina/metabolismo , Relação Estrutura-Atividade
9.
Chembiochem ; 17(16): 1532-40, 2016 08 17.
Artigo em Inglês | MEDLINE | ID: mdl-27253512

RESUMO

Gene expression is extensively regulated by the occurrence and distribution of the epigenetic marker 2'-deoxy 5-methylcytosine (5mC) in genomic DNA. Because of its effects on tumorigenesis there is an important link to human health. In addition, detection of 5mC can serve as an outstanding biomarker for diagnostics as well as for disease therapy. Our previous studies have already shown that, by processing O(6) -alkylated 2'-deoxyguanosine triphosphate (dGTP) analogues, DNA polymerases are able to sense the presence of a single 5mC unit in a template. Here we present the synthesis and evaluation of an extended toolbox of 6-substituted 2-aminopurine-2'-deoxyribonucleoside 5'-triphosphates modified at position 6 with various functionalities. We found that sensing of 5-methylation by this class of nucleotides is more general, not being restricted to O(6) -alkyl modification of dGTP but also applying to other functionalities.


Assuntos
Citosina/metabolismo , Nucleotídeos de Purina/química , Citosina/química , Metilação , Nucleotídeos de Purina/síntese química , Nucleotídeos de Purina/metabolismo
10.
Free Radic Biol Med ; 96: 418-31, 2016 07.
Artigo em Inglês | MEDLINE | ID: mdl-27154982

RESUMO

UV-A radiation (320-400nm), recognized as a class I carcinogen, induces damage to the DNA molecule and its components through different mechanisms. Pterin derivatives are involved in various biological functions, including enzymatic processes, and it has been demonstrated that oxidized pterins may act as photosensitizers. In particular, they accumulate in the skin of patients suffering from vitiligo, a chronic depigmentation disorder. We have investigated the ability of pterin (Ptr), the parent compound of oxidized pterins, to photosensitize the degradation of the pyrimidine nucleotide thymidine 5'-monophosphate (dTMP) in aqueous solutions under UV-A irradiation. Although thymine is less reactive than purine nucleobases, our results showed that Ptr is able to photoinduce the degradation of dTMP and that the process is initiated by an electron transfer from the nucleotide to the triplet excited state of Ptr. In the presence of molecular oxygen, the photochemical process leads to the oxidation of dTMP, whereas Ptr is not consumed. In the absence of oxygen, both compounds are consumed to yield a product in which the pterin moiety is covalently linked to the thymine. This compound retains some of the spectroscopic properties of Ptr, such as absorbance in the UV-A region and fluorescence properties.


Assuntos
Oxirredução/efeitos dos fármacos , Fármacos Fotossensibilizantes/farmacologia , Pterinas/farmacologia , Timidina Monofosfato/química , Transporte de Elétrons/efeitos dos fármacos , Humanos , Oxigênio/química , Nucleotídeos de Purina/química , Timidina Monofosfato/efeitos da radiação , Raios Ultravioleta
11.
Eur J Med Chem ; 85: 418-37, 2014 Oct 06.
Artigo em Inglês | MEDLINE | ID: mdl-25108359

RESUMO

The 2'-deoxynucleoside 5'-phosphate N-hydrolase 1 (DNPH1) has been proposed as a new molecular target for cancer treatment. Here, we describe the synthesis of a series of novel 6-aryl- and 6-heteroarylpurine riboside 5'-monophosphates via Suzuki-Miyaura cross-coupling reactions, and their ability to inhibit recombinant rat and human DNPH1. Enzymatic inhibition studies revealed competitive inhibitors in the low micromolar range. Crystal structures of human and rat DNPH1 in complex with one nucleotide from this series, the 6-naphthylpurine derivative, provided detailed structural information, in particular regarding the possible conformations of a long and flexible loop wrapping around the large hydrophobic substituent. Taking advantage of these high-resolution structures, we performed virtual docking studies in order to evaluate enzyme-inhibitor interactions for the whole compound series. Among the synthesized compounds, several molecules exhibited significant in vitro cytotoxicity against human colon cancer (HCT15, HCT116) and human promyelocytic leukemia (HL60) cell lines with IC50 values in the low micromolar range, which correlated with in vitro DNPH1 inhibitory potency.


Assuntos
Desenho de Fármacos , Terapia de Alvo Molecular , N-Glicosil Hidrolases/antagonistas & inibidores , Proteínas Nucleares/antagonistas & inibidores , Proteínas Proto-Oncogênicas/antagonistas & inibidores , Nucleotídeos de Purina/síntese química , Nucleotídeos de Purina/farmacologia , Animais , Antineoplásicos/síntese química , Antineoplásicos/química , Antineoplásicos/metabolismo , Antineoplásicos/farmacologia , Linhagem Celular Tumoral , Técnicas de Química Sintética , Ensaios de Seleção de Medicamentos Antitumorais , Inibidores Enzimáticos/síntese química , Inibidores Enzimáticos/química , Inibidores Enzimáticos/metabolismo , Inibidores Enzimáticos/farmacologia , Humanos , Simulação de Acoplamento Molecular , N-Glicosil Hidrolases/química , N-Glicosil Hidrolases/metabolismo , Proteínas Nucleares/química , Proteínas Nucleares/metabolismo , Conformação Proteica , Proteínas Proto-Oncogênicas/química , Proteínas Proto-Oncogênicas/metabolismo , Nucleotídeos de Purina/química , Nucleotídeos de Purina/metabolismo , Ratos , Relação Estrutura-Atividade
12.
Mol Biosyst ; 10(11): 2756-74, 2014 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-25124808

RESUMO

The 8-azapurines, and their 7-deaza and 9-deaza congeners, represent a unique class of isosteric (isomorphic) analogues of the natural purines, frequently capable of substituting for the latter in many biochemical processes. Particularly interesting is their propensity to exhibit pH-dependent room-temperature fluorescence in aqueous medium, and in non-polar media. We herein review the physico-chemical properties of this class of compounds, with particular emphasis on the fluorescence emission properties of their neutral and/or ionic species, which has led to their widespread use as fluorescent probes in enzymology, including enzymes involved in purine metabolism, agonists/antagonists of adenosine receptors, mechanisms of catalytic RNAs, RNA editing, etc. They are also exceptionally useful fluorescent probes for analytical and clinical applications in crude cell homogenates.


Assuntos
Corantes Fluorescentes/química , Corantes Fluorescentes/metabolismo , Purinas/química , Purinas/metabolismo , Enzimas/análise , Enzimas/química , Humanos , Modelos Moleculares , Ácidos Nucleicos/análise , Ácidos Nucleicos/química , Nucleosídeos de Purina/química , Nucleotídeos de Purina/química , Espectrometria de Fluorescência
13.
J Phys Chem A ; 118(27): 4966-74, 2014 Jul 10.
Artigo em Inglês | MEDLINE | ID: mdl-24926567

RESUMO

The photo-oxidation of purine nucleotides adenosine-5'-monophosphate (AMP) and guanosine-5'-monophosphate (GMP) by 3,3',4,4'-benzophenone tetracarboxylic acid (TCBP) has been investigated in aqueous solutions using nanosecond laser flash photolysis (LFP) and time-resolved chemically induced dynamic nuclear polarization (CIDNP). The pH dependences of quenching rate constants and of geminate polarization are measured within a wide range of pH values. As a result, the chemical reactivity of reacting species in different protonation states is determined. In acidic solution (pH < 4.9), the quenching rate constant is close to the diffusion-controlled limit: kq = 1.3 × 10(9) M(-1) s(-1) (GMP), and kq = 1.2 × 10(9) M(-1) s(-1) (AMP), whereas in neutral and basic solutions it is significantly lower: kq = 2.6 × 10(8) M(-1) s(-1) (GMP, 4.9 < pH < 9.4), kq = 3.5 × 10(7) M(-1) s(-1) (GMP, pH > 9.4), kq = 1.0 × 10(8) M(-1) s(-1) (AMP, pH > 6.5). Surprisingly, the strong influence of the protonation state of the phosphoric group on the oxidation of adenosine-5'-monophosphate is revealed: the deprotonation of the AMP phosphoric group (6.5) decreases the quenching rate constant from 5.0 × 10(8) M(-1) s(-1) (4.9 < pH < 6.5) to 1.0 × 10(8) M(-1) s(-1) (pH > 6.5).


Assuntos
Benzofenonas/química , Ácidos Carboxílicos/química , Concentração de Íons de Hidrogênio , Nucleotídeos de Purina/química , Oxirredução , Soluções , Água/química
14.
Mol Pharm ; 11(1): 254-64, 2014 Jan 06.
Artigo em Inglês | MEDLINE | ID: mdl-24251728

RESUMO

Gene silencing by either small-interference RNAs (siRNA) or antisense oligodeoxynucleotides (aODN) is widely used in biomedical research. However, their use as therapeutic agents is hindered by two important limitations: their low stability and the activation of the innate immune response. Recently, we developed a new type of molecule to decrease gene expression named polypurine reverse Hoogsteen hairpins (PPRHs) that bind to polypyrimidine targets in the DNA. Herein, stability experiments performed in mouse, human, and fetal calf serum and in PC3 cells revealed that the half-life of PPRHs is much longer than that of siRNAs in all cases. Usage of PPRHs with a nicked-circular structure increased the binding affinity to their target sequence and their half-life in FCS when bound to the target. Regarding the innate immune response, we determined that the levels of the transcription factors IRF3 and its phosphorylated form, as well as NF-κB were increased by siRNAs and not by PPRHs; that the expression levels of several proinflammatory cytokines including IL-6, TNF-α, IFN-α, IFN-ß, IL-1ß, and IL-18 were not significantly increased by PPRHs; and that the cleavage and activation of the proteolytic enzyme caspase-1 was not triggered by PPRHs. These determinations indicated that PPRHs, unlike siRNAs, do not activate the innate inflammatory response.


Assuntos
Neoplasias da Mama/imunologia , Inativação Gênica/imunologia , Neoplasias da Próstata/imunologia , Nucleotídeos de Purina/química , Nucleotídeos de Purina/imunologia , Animais , Western Blotting , Neoplasias da Mama/genética , Neoplasias da Mama/metabolismo , Proliferação de Células , Citocinas/genética , Citocinas/metabolismo , Ensaio de Desvio de Mobilidade Eletroforética , Feminino , Meia-Vida , Humanos , Fator Regulador 3 de Interferon/genética , Fator Regulador 3 de Interferon/metabolismo , Masculino , Camundongos , NF-kappa B/genética , NF-kappa B/metabolismo , Neoplasias da Próstata/genética , Neoplasias da Próstata/metabolismo , Nucleotídeos de Purina/farmacologia , RNA Mensageiro/genética , RNA Interferente Pequeno/genética , Reação em Cadeia da Polimerase em Tempo Real , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Células Tumorais Cultivadas
15.
Nucleosides Nucleotides Nucleic Acids ; 31(5): 423-31, 2012 May.
Artigo em Inglês | MEDLINE | ID: mdl-22497257

RESUMO

A facile, straightforward, reliable, and an efficient method for the gram-scale chemical synthesis of both purine deoxynucleotides such as 2 '-deoxyguanosine-5 '-triphosphate (dGTP) and 2 '-deoxyadenosine-5 '-triphosphate (dATP) and pyrimidine deoxynucleotides such as 2 '-deoxycytidine-5 '-triphosphate (dCTP), thymidine-5 '-triphosphate (TTP), and 2 '-deoxyuridine-5 '-triphosphate (dUTP) starting from the corresponding nucleoside is described. This improved "one-pot, three step" Ludwig synthetic strategy involves the monophosphorylation of nucleoside followed by reaction with tributylammonium pyrophosphate and hydrolysis of the resulting cyclic intermediate to provide the corresponding dNTP in good yields (65%-70%).


Assuntos
Técnicas de Química Sintética/métodos , Polifosfatos/química , Nucleotídeos de Purina/química , Nucleotídeos de Purina/síntese química , Nucleotídeos de Pirimidina/química , Nucleotídeos de Pirimidina/síntese química
16.
Gene ; 487(1): 52-61, 2011 Nov 01.
Artigo em Inglês | MEDLINE | ID: mdl-21839154

RESUMO

The mu opioid receptor (MOR) is the principle molecular target of opioid analgesics. The polypyrimidine/polypurine (PPy/u) motif enhances the activity of the MOR gene promoter by adopting a non-B DNA conformation. Here, we report that the PPy/u motif regulates the processivity of torsional stress, which is important for endogenous MOR gene expression. Analysis by topoisomerase assays, S1 nuclease digests, and atomic force microscopy showed that, unlike homologous PPy/u motifs, the position- and orientation-induced structural strains to the mouse PPy/u element affect its ability to perturb the relaxation activity of topoisomerase, resulting in polypurine strand-nicked and catenated DNA conformations. Raman spectrum microscopy confirmed that mouse PPy/u containing-plasmid DNA molecules under the different structural strains have a different configuration of ring bases as well as altered Hoogsteen hydrogen bonds. The mouse MOR PPy/u motif drives reporter gene expression fortyfold more effectively in the sense orientation than in the antisense orientation. Furthermore, mouse neuronal cells activate MOR gene expression in response to the perturbations of topology by topoisomerase inhibitors, whereas human cells do not. These results suggest that, interestingly among homologous PPy/u motifs, the mouse MOR PPy/u motif dynamically responds to torsional stress and consequently regulates MOR gene expression in vivo.


Assuntos
DNA/genética , Regiões Promotoras Genéticas/genética , Receptores Opioides mu/genética , Sequências Reguladoras de Ácido Nucleico/genética , Animais , Sítios de Ligação/genética , Camptotecina/análogos & derivados , Camptotecina/farmacologia , Linhagem Celular Tumoral , DNA/química , Regulação da Expressão Gênica/efeitos dos fármacos , Humanos , Irinotecano , Luciferases/genética , Luciferases/metabolismo , Camundongos , Microscopia de Força Atômica , Conformação de Ácido Nucleico , Nucleotídeos de Purina/química , Nucleotídeos de Purina/genética , Nucleotídeos de Pirimidina/química , Nucleotídeos de Pirimidina/genética , Receptores Opioides mu/metabolismo , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Análise Espectral Raman , Inibidores da Topoisomerase I/farmacologia
17.
Biochem Pharmacol ; 82(4): 358-70, 2011 Aug 15.
Artigo em Inglês | MEDLINE | ID: mdl-21620805

RESUMO

Membranous adenylyl cyclases (ACs) play a key role in signal transduction and are promising drug targets. In previous studies we showed that 2',3'-(O)-(N-methylanthraniloyl) (MANT)-substituted nucleotides are potent AC inhibitors. The aim of this study was to provide systematic structure-activity relationships for 21 (M)ANT-substituted nucleotides at the purified catalytic AC subunit heterodimer VC1:IIC2, the VC1:VC1 homodimer and recombinant ACs 1, 2 and 5. (M)ANT-nucleotides inhibited fully activated VC1:IIC2 in the order of affinity for bases hypoxanthine>uracil>cytosine>adenine∼guanine≫xanthine. Omission of a hydroxyl group at the 2' or 3'-position reduced inhibitor potency as did introduction of a γ-thiophosphate group or omission of the γ-phosphate group. Substitution of the MANT-group by an ANT-group had little effect on affinity. Although all nucleotides bound to VC1:IIC2 similarly according to the tripartite pharmacophore model with a site for the base, the ribose, and the phosphate chain, nucleotides exhibited subtle differences in their binding modes as revealed by fluorescence spectroscopy and molecular modelling. MANT-nucleotides also differentially interacted with the VC1:VC1 homodimer as assessed by fluorescence spectroscopy and modelling. Similar structure-activity relationships as for VC1:IIC2 were obtained for recombinant ACs 1, 2 and 5, with AC2 being the least sensitive AC isoform in terms of inhibition. Overall, ACs possess a broad base-specificity with no preference for the "cognate" base adenine as verified by enzyme inhibition, fluorescence spectroscopy and molecular modelling. These properties of ACs are indicative for ligand-specific conformational landscapes that extend to the VC1:VC1 homodimer and should facilitate development of non-nucleotide inhibitors.


Assuntos
Adenilil Ciclases/metabolismo , Nucleotídeos de Purina/química , Nucleotídeos de Purina/metabolismo , Nucleotídeos de Pirimidina/química , Nucleotídeos de Pirimidina/metabolismo , Trifosfato de Adenosina/análogos & derivados , Trifosfato de Adenosina/química , Trifosfato de Adenosina/metabolismo , Animais , Domínio Catalítico , Linhagem Celular , Guanosina Trifosfato/análogos & derivados , Guanosina Trifosfato/química , Guanosina Trifosfato/metabolismo , Mamíferos , Modelos Moleculares , Ligação Proteica/fisiologia , Espectrometria de Fluorescência , Spodoptera , Relação Estrutura-Atividade , ortoaminobenzoatos/química , ortoaminobenzoatos/metabolismo
18.
Biochemistry ; 50(19): 4132-42, 2011 May 17.
Artigo em Inglês | MEDLINE | ID: mdl-21381700

RESUMO

Modulation of endogenous gene function, through sequence-specific recognition of double helical DNA via oligonucleotide-directed triplex formation, is a promising approach. Compared to the formation of pyrimidine motif triplexes, which require relatively low pH, purine motif appears to be the most gifted for their stability under physiological conditions. Our previous work has demonstrated formation of magnesium-ion dependent highly stable intermolecular triplexes using a purine third strand of varied lengths, at the purine•pyrimidine (Pu•Py) targets of SIV/HIV-2 (vpx) genes (Svinarchuk, F., Monnot, M., Merle, A., Malvy, C., and Fermandjian, S. (1995) Nucleic Acids Res. 23, 3831-3836). Herein, we show that a designed intramolecular version of the 11-bp core sequence of the said targets, which also constitutes an integral, short, and symmetrical segment (G(2)AG(5)AG(2))•(C(2)TC(5)TC(2)) of human c-jun protooncogene forms a stable triplex, even in the absence of magnesium. The sequence d-C(2)TC(5)TC(2)T(5)G(2)AG(5)AG(2)T(5)G(2)AG(5)AG(2) (I-Pu) folds back twice onto itself to form an intramolecular triple helix via a double hairpin formation. The design ensures that the orientation of the intact third strand is antiparallel with respect to the oligopurine strand of the duplex. The triple helix formation has been revealed by non-denaturating gel assays, UV-thermal denaturation, and circular dichroism (CD) spectroscopy. The monophasic melting curve, recorded in the presence of sodium, represented the dissociation of intramolecular triplex to single strand in one step; however, the addition of magnesium bestowed thermal stability to the triplex. Formation of intramolecular triple helix at neutral pH in sodium, with or without magnesium cations, was also confirmed by gel electrophoresis. The triplex, mediated by sodium alone, destabilizes in the presence of 5'-C(2)TC(5)TC(2)-3', an oligonucleotide complementary to the 3'-oligopurine segments of I-Pu, whereas in the presence of magnesium the triplex remained impervious. CD spectra showed the signatures of triplex structure with A-like DNA conformation. We suggest that the possible formation of pH and magnesium-independent purine-motif triplexes at genomic Pu•Py sequences may be pertinent to gene regulation.


Assuntos
DNA/química , Marcação de Genes/métodos , Genes jun , Conformação de Ácido Nucleico , Nucleotídeos de Purina/química , Cátions Bivalentes/química , Cátions Bivalentes/efeitos da radiação , DNA/efeitos da radiação , Genes jun/efeitos da radiação , Temperatura Alta , Humanos , Magnésio/química , Magnésio/efeitos da radiação , Conformação de Ácido Nucleico/efeitos da radiação , Desnaturação de Ácido Nucleico/efeitos da radiação , Nucleotídeos de Purina/efeitos da radiação , Nucleotídeos de Pirimidina/química , Nucleotídeos de Pirimidina/efeitos da radiação , Sódio/química , Sódio/efeitos da radiação , Raios Ultravioleta
19.
Org Biomol Chem ; 9(5): 1366-71, 2011 Mar 07.
Artigo em Inglês | MEDLINE | ID: mdl-21203615

RESUMO

A simple approach to DNA tail-labelling using terminal deoxynucleotidyl transferase and modified deoxynucleoside triphosphates is presented. Amino- and nitrophenyl-modified dNTPs were found to be good substrates for this enzyme giving 3'-end stretches of different lengths depending on the nucleotide and concentration. 3-Nitrophenyl-7-deazaG was selected as the most useful label because its dNTP was efficiently incorporated by the transferase to form long tail-labels at any oligonucleotide. Accumulation of many nitrophenyl tags per oligonucleotide resulted in a considerable enhancement of voltammetric signals due to the nitro group reduction, thus improving the sensitivity of electrochemical detection of the tail-labelled probes. We demonstrate a perfect discrimination between complementary and non-complementary target DNAs sequences by tail-labelled hybridization probes as well as the ability of tumour suppressor p53 protein to recognize a specific binding site within tail-labelled DNA substrates, making the methodology useful in electrochemical DNA hybridization and DNA-protein interaction assays.


Assuntos
DNA Nucleotidilexotransferase/química , Sondas de DNA/análise , Proteínas de Ligação a DNA/química , Técnicas Eletroquímicas/métodos , Hibridização de Ácido Nucleico/métodos , Nucleotídeos de Purina/química , Sondas de DNA/química , Estrutura Molecular
20.
ChemMedChem ; 5(8): 1386-96, 2010 Aug 02.
Artigo em Inglês | MEDLINE | ID: mdl-20533504

RESUMO

A series of cycloSal-phosphate prodrugs of a recently described new class of nucleoside cytostatics (6-hetaryl-7-deazapurine ribonucleosides) was prepared. The corresponding 2',3'-isopropylidene 6-chloro-7-deazapurine nucleosides were converted into 5-O'-cycloSal-phosphates. These underwent a series of Stille or Suzuki cross-couplings with diverse (het)arylstannanes or -boronic acids to yield the protected 6-(het)aryl-7-deazapurine pronucleotides that were subsequently deprotected to give 12 derivatives of free pronucleotides. The in vitro cytostatic effect of the pronucleotides was compared with parent nucleoside analogues. In most cases, the activity of the pronucleotide was similar to or somewhat lower than that of the corresponding parent nucleosides, with the exception of 7-fluoro pronucleotides 13 a, 13 b, and 13 d, which had exhibited GIC(50) values that were improved by one order of magnitude (to the low nanomolar range). The presence of a cycloSal-phosphate group also influenced selectivity toward various cell lines. Several pronucleotides were found which strongly inhibit human adenosine kinase but only weakly inhibit the MTB adenosine kinase.


Assuntos
Adenosina Quinase/antagonistas & inibidores , Citostáticos/síntese química , Fosfatos/química , Nucleotídeos de Purina/síntese química , Purinas/química , Ribonucleosídeos/química , Adenosina Quinase/metabolismo , Linhagem Celular Tumoral , Citostáticos/química , Citostáticos/farmacologia , Ensaios de Seleção de Medicamentos Antitumorais , Humanos , Pró-Fármacos/síntese química , Pró-Fármacos/química , Pró-Fármacos/farmacologia , Nucleotídeos de Purina/química , Nucleotídeos de Purina/farmacologia , Ribonucleosídeos/síntese química , Ribonucleosídeos/farmacologia
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