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1.
Virol J ; 20(1): 148, 2023 Jul 13.
Artículo en Inglés | MEDLINE | ID: mdl-37443068

RESUMEN

BACKGROUND: The Epstein-Barr virus (EBV) is a prevalent oncovirus associated with a variety of human illnesses. BGLF5, an EBV DNase with alkaline nuclease (AN) activity, plays important roles in the viral life cycle and progression of human malignancies and has been suggested as a possible diagnostic marker and target for cancer therapy. Methods used conventionally for the detection of AN activity, radioactivity-based nuclease activity assay and DNA digestion detection by gel electrophoresis, are not suitable for screening AN inhibitors; the former approach is unsafe, and the latter is complicated. In the present study, a fluorescence-based nuclease activity assay was used to screen several natural compounds and identify an EBV DNase inhibitor. RESULTS: Fluorescence-based nuclease activity assays, in which the DNA substrate is labelled with PicoGreen dye, are cheaper, safer, and easier to perform. Herein, the results of the fluorescence-based nuclease activity assay were consistent with the results of the two conventional methods. In addition, the PicoGreen-labelling method was applied for the biochemical characterisation of viral nucleases. Using this approach, we explored EBV DNase inhibitors. After several rounds of screening, emodin, an anthraquinone derivative, was found to possess significant anti-EBV DNase activity. We verified the efficacy of emodin using the conventional DNA-cleavage assay. Furthermore, using comet assay and micronucleus formation detection, we confirmed that emodin can inhibit DNase-induced DNA damage and genomic instability. Additionally, emodin treatment inhibited EBV production. CONCLUSIONS: Using a PicoGreen-mediated nuclease activity assay, we successfully demonstrated that emodin has the potential to inhibit EBV DNase nuclease activity. Emodin also inhibits EBV DNase-related biological functions, suggesting that it is a potential inhibitor of EBV DNase.


Asunto(s)
Emodina , Infecciones por Virus de Epstein-Barr , Humanos , Emodina/farmacología , Herpesvirus Humano 4/genética , ADN , Desoxirribonucleasas/química , Desoxirribonucleasas/genética
2.
Nature ; 590(7847): 624-629, 2021 02.
Artículo en Inglés | MEDLINE | ID: mdl-33461211

RESUMEN

In the type III CRISPR-Cas immune response of prokaryotes, infection triggers the production of cyclic oligoadenylates that bind and activate proteins that contain a CARF domain1,2. Many type III loci are associated with proteins in which the CRISPR-associated Rossman fold (CARF) domain is fused to a restriction  endonuclease-like domain3,4. However, with the exception of the well-characterized Csm6 and Csx1 ribonucleases5,6, whether and how these inducible effectors provide defence is not known. Here we investigated a type III CRISPR accessory protein, which we name cyclic-oligoadenylate-activated single-stranded ribonuclease and single-stranded deoxyribonuclease 1 (Card1). Card1 forms a symmetrical dimer that has a large central cavity between its CRISPR-associated Rossmann fold and restriction endonuclease domains that binds cyclic tetra-adenylate. The binding of ligand results in a conformational change comprising the rotation of individual monomers relative to each other to form a more compact dimeric scaffold, in which a manganese cation coordinates the catalytic residues and activates the cleavage of single-stranded-but not double-stranded-nucleic acids (both DNA and RNA). In vivo, activation of Card1 induces dormancy of the infected hosts to provide immunity against phage infection and plasmids. Our results highlight the diversity of strategies used in CRISPR systems to provide immunity.


Asunto(s)
Nucleótidos de Adenina/metabolismo , Sistemas CRISPR-Cas/inmunología , ADN de Cadena Simple/metabolismo , Desoxirribonucleasas/metabolismo , Endorribonucleasas/metabolismo , Oligorribonucleótidos/metabolismo , ARN/metabolismo , Staphylococcus/enzimología , Staphylococcus/inmunología , Nucleótidos de Adenina/inmunología , Adenosina Trifosfato/metabolismo , Bacteriófagos/inmunología , Bacteriófagos/fisiología , Biocatálisis , Dominio Catalítico , Desoxirribonucleasas/química , Desoxirribonucleasas/genética , Endorribonucleasas/química , Endorribonucleasas/genética , Activación Enzimática , Ligandos , Manganeso/química , Manganeso/metabolismo , Modelos Moleculares , Oligorribonucleótidos/inmunología , Plásmidos/genética , Plásmidos/metabolismo , Multimerización de Proteína , Rotación , Staphylococcus/crecimiento & desarrollo , Staphylococcus/virología , Especificidad por Sustrato
3.
Biochem Soc Trans ; 48(6): 2359-2376, 2020 12 18.
Artículo en Inglés | MEDLINE | ID: mdl-33300987

RESUMEN

The bacterial SbcC/SbcD DNA repair proteins were identified over a quarter of a century ago. Following the subsequent identification of the homologous Mre11/Rad50 complex in the eukaryotes and archaea, it has become clear that this conserved chromosomal processing machinery is central to DNA repair pathways and the maintenance of genomic stability in all forms of life. A number of experimental studies have explored this intriguing genome surveillance machinery, yielding significant insights and providing conceptual advances towards our understanding of how this complex operates to mediate DNA repair. However, the inherent complexity and dynamic nature of this chromosome-manipulating machinery continue to obfuscate experimental interrogations, and details regarding the precise mechanisms that underpin the critical repair events remain unanswered. This review will summarize our current understanding of the dramatic structural changes that occur in Mre11/Rad50 complex to mediate chromosomal tethering and accomplish the associated DNA processing events. In addition, undetermined mechanistic aspects of the DNA enzymatic pathways driven by this vital yet enigmatic chromosomal surveillance and repair apparatus will be discussed. In particular, novel and putative models of DNA damage recognition will be considered and comparisons will be made between the modes of action of the Rad50 protein and other related ATPases of the overarching SMC superfamily.


Asunto(s)
Proteínas Bacterianas/química , Roturas del ADN de Doble Cadena , Reparación del ADN , Desoxirribonucleasas/química , Proteínas de Escherichia coli/química , Exonucleasas/química , Ácido Anhídrido Hidrolasas/metabolismo , Adenosina Trifosfatasas/química , Adenosina Trifosfato/química , Proteínas Arqueales/metabolismo , Proteínas Bacterianas/metabolismo , Ciclo Celular , ADN/química , Proteínas de Unión al ADN/genética , Proteínas de Unión al ADN/metabolismo , Desoxirribonucleasas/metabolismo , Endodesoxirribonucleasas/química , Endodesoxirribonucleasas/metabolismo , Proteínas de Escherichia coli/metabolismo , Exodesoxirribonucleasas/metabolismo , Exonucleasas/metabolismo , Humanos , Hidrólisis , Proteína Homóloga de MRE11/metabolismo , Mutación , Unión Proteica , Conformación Proteica , Zinc/química
4.
Nucleic Acids Res ; 48(20): 11695-11705, 2020 11 18.
Artículo en Inglés | MEDLINE | ID: mdl-32986831

RESUMEN

Nucleotide excision repair (NER) removes various DNA lesions caused by UV light and chemical carcinogens. The DNA helicase XPB plays a key role in DNA opening and coordinating damage incision by nucleases during NER, but the underlying mechanisms remain unclear. Here, we report crystal structures of XPB from Sulfurisphaera tokodaii (St) bound to the nuclease Bax1 and their complex with a bubble DNA having one arm unwound in the crystal. StXPB and Bax1 together spirally encircle 10 base pairs of duplex DNA at the double-/single-stranded (ds-ss) junction. Furthermore, StXPB has its ThM motif intruding between the two DNA strands and gripping the 3'-overhang while Bax1 interacts with the 5'-overhang. This ternary complex likely reflects the state of repair bubble extension by the XPB and nuclease machine. ATP binding and hydrolysis by StXPB could lead to a spiral translocation along dsDNA and DNA strand separation by the ThM motif, revealing an unconventional DNA unwinding mechanism. Interestingly, the DNA is kept away from the nuclease domain of Bax1, potentially preventing DNA incision by Bax1 during repair bubble extension.


Asunto(s)
ADN Helicasas/química , Reparación del ADN , Proteínas de Unión al ADN/química , ADN/química , Desoxirribonucleasas/química , Disparidad de Par Base , Microscopía por Crioelectrón , Cristalografía por Rayos X , ADN/metabolismo , ADN Helicasas/metabolismo , Proteínas de Unión al ADN/metabolismo , Desoxirribonucleasas/metabolismo , Humanos , Modelos Moleculares , Conformación Proteica , Sulfolobaceae/enzimología , Factor de Transcripción TFIIH/química , Factor de Transcripción TFIIH/metabolismo
5.
Proc Natl Acad Sci U S A ; 117(33): 19953-19962, 2020 08 18.
Artículo en Inglés | MEDLINE | ID: mdl-32737158

RESUMEN

Protein conformational changes associated with ligand binding, especially those involving intrinsically disordered proteins, are mediated by tightly coupled intra- and intermolecular events. Such reactions are often discussed in terms of two limiting kinetic mechanisms, conformational selection (CS), where folding precedes binding, and induced fit (IF), where binding precedes folding. It has been shown that coupled folding/binding reactions can proceed along both CS and IF pathways with the flux ratio depending on conditions such as ligand concentration. However, the structural and energetic basis of such complex reactions remains poorly understood. Therefore, we used experimental, theoretical, and computational approaches to explore structural and energetic aspects of the coupled-folding/binding reaction of staphylococcal nuclease in the presence of the substrate analog adenosine-3',5'-diphosphate. Optically monitored equilibrium and kinetic data, combined with a statistical mechanical model, gave deeper insight into the relative importance of specific and Coulombic protein-ligand interactions in governing the reaction mechanism. We also investigated structural aspects of the reaction at the residue level using NMR and all-atom replica-permutation molecular dynamics simulations. Both approaches yielded clear evidence for accumulation of a transient protein-ligand encounter complex early in the reaction under IF-dominant conditions. Quantitative analysis of the equilibrium/kinetic folding revealed that the ligand-dependent CS-to-IF shift resulted from stabilization of the compact transition state primarily by weakly ligand-dependent Coulombic interactions with smaller contributions from specific binding energies. At a more macroscopic level, the CS-to-IF shift was represented as a displacement of the reaction "route" on the free energy surface, which was consistent with a flux analysis.


Asunto(s)
Proteínas Bacterianas/química , Desoxirribonucleasas/química , Staphylococcus/enzimología , Proteínas Bacterianas/metabolismo , Desoxirribonucleasas/metabolismo , Cinética , Ligandos , Simulación de Dinámica Molecular , Staphylococcus/química
6.
Analyst ; 145(5): 1783-1788, 2020 Mar 07.
Artículo en Inglés | MEDLINE | ID: mdl-31942587

RESUMEN

This work describes a novel method for quantification of miRNAs based on multistage signal amplification (MSA) and liquid chromatography-electrospray ionization tandem mass spectrometry (LC-ESI-MS/MS). The multistage signal amplification involves hybridization enrichment of miRNA targets with a DNA probe-magnetic bead conjugate, target recycling amplification with a duplex-specific nuclease, and acid hydrolysis of the reporter molecules producing free nucleobases. Nucleobases thus generated are quantified by LC-ESI-MS/MS with specificity and repeatability. Taking miR-21 as the model target, biological samples such as serum and cell cultures were analyzed by using the present protocol. The analytical results indicate that facile and cost-effective quantifications of miRNA targets can be achieved by using the popular LC-ESI-MS/MS technique, and very importantly, without an isolation of total RNAs from the sample prior to the quantitative assay. The assay for miR-21 detection had a linear calibration curve in the range from 0.2 pM to 0.25 nM with a limit of detection of 60 fM. Analysis of MCF-7 cells treated with toremifene (a potent inhibitor of breast cancer cell growth) revealed that the content of miRNA-21 decreased by ca. 50%, and the decrease was dose-dependent.


Asunto(s)
Cromatografía Liquida/métodos , MicroARNs/análisis , Espectrometría de Masa por Ionización de Electrospray/métodos , Espectrometría de Masas en Tándem/métodos , Sondas de ADN/química , Sondas de ADN/genética , ADN de Cadena Simple/química , ADN de Cadena Simple/genética , Desoxirribonucleasas/química , Humanos , Ácidos Nucleicos Inmovilizados/química , Ácidos Nucleicos Inmovilizados/genética , Límite de Detección , Células MCF-7 , MicroARNs/genética , Hibridación de Ácido Nucleico
7.
Enzymes ; 45: 225-256, 2019.
Artículo en Inglés | MEDLINE | ID: mdl-31627878

RESUMEN

Despite their relative simplicity, iron-sulfur clusters have been omnipresent as cofactors in myriad cellular processes such as oxidative phosphorylation and other respiratory pathways. Recent research advances confirm the presence of different clusters in enzymes involved in nucleic acid metabolism. Iron-sulfur clusters can therefore be considered hallmarks of cellular metabolism. Helicases, nucleases, glycosylases, DNA polymerases and transcription factors, among others, incorporate various types of clusters that serve differing roles. In this chapter, we review our current understanding of the identity and functions of iron-sulfur clusters in DNA and RNA metabolizing enzymes, highlighting their importance as regulators of cellular function.


Asunto(s)
Coenzimas/metabolismo , Proteínas Hierro-Azufre/química , Proteínas Hierro-Azufre/metabolismo , Ácidos Nucleicos/metabolismo , Coenzimas/química , ADN Glicosilasas/química , ADN Glicosilasas/metabolismo , ADN Helicasas/química , ADN Helicasas/metabolismo , ADN Polimerasa Dirigida por ADN/química , ADN Polimerasa Dirigida por ADN/metabolismo , Desoxirribonucleasas/química , Desoxirribonucleasas/metabolismo
8.
Nucleic Acids Res ; 47(17): 9448-9463, 2019 09 26.
Artículo en Inglés | MEDLINE | ID: mdl-31400118

RESUMEN

Overcoming lysogenization defect (OLD) proteins constitute a family of uncharacterized nucleases present in bacteria, archaea, and some viruses. These enzymes contain an N-terminal ATPase domain and a C-terminal Toprim domain common amongst replication, recombination, and repair proteins. The in vivo activities of OLD proteins remain poorly understood and no definitive structural information exists. Here we identify and define two classes of OLD proteins based on differences in gene neighborhood and amino acid sequence conservation and present the crystal structures of the catalytic C-terminal regions from the Burkholderia pseudomallei and Xanthamonas campestris p.v. campestris Class 2 OLD proteins at 2.24 Å and 1.86 Å resolution respectively. The structures reveal a two-domain architecture containing a Toprim domain with altered architecture and a unique helical domain. Conserved side chains contributed by both domains coordinate two bound magnesium ions in the active site of B. pseudomallei OLD in a geometry that supports a two-metal catalysis mechanism for cleavage. The spatial organization of these domains additionally suggests a novel mode of DNA binding that is distinct from other Toprim containing proteins. Together, these findings define the fundamental structural properties of the OLD family catalytic core and the underlying mechanism controlling nuclease activity.


Asunto(s)
Burkholderia pseudomallei/química , Dominio Catalítico/genética , Desoxirribonucleasas/ultraestructura , Conformación Proteica , Xanthomonas/química , Adenosina Trifosfatasas/química , Adenosina Trifosfatasas/genética , Secuencia de Aminoácidos/genética , Burkholderia pseudomallei/genética , Catálisis , Desoxirribonucleasas/química , Desoxirribonucleasas/genética , Evolución Molecular , Lisogenia/genética , Metales/química , Dominios Proteicos/genética , Alineación de Secuencia , Xanthomonas/genética
9.
Biosens Bioelectron ; 142: 111544, 2019 Oct 01.
Artículo en Inglés | MEDLINE | ID: mdl-31376717

RESUMEN

Rapid and efficient detection of microRNA (miRNA) of breast cancer 1 gene mutation (BRCA1) at their earliest stages is one of the crucial challenges in cancer diagnostics. In this study, a highly-sensitive electrochemical DNA biosensor was fabricated by double signal amplification (DSA) strategy for the detection of ultra-trace miRNA of BRCA1. In the presence of target miRNA of BRCA1, the well-matched RNA-DNA duplexes were specifically recognized by double-strand specific nuclease (DSN), and the DNA part of the duplexes were then cleaved and miRNAs were released to trigger another following cycle, which produced a primarily amplified signal by such a cyclic enzymatic signal amplification (CESA). Then triple-CdTe quantum dot labelled DNA nanocomposites (3-QD@DNA NC) was selectively hybridized with the cleaved DNA probe on the electrode and produced multiply amplified signals. The biosensor exhibited a high sensitivity for the detection of miRNA of BRCA1 in concentrations ranging from 5 aM to 5 fM, and its detection limit of 1.2 aM was obtained, which is two or three orders of magnitude lower than those by single signal amplification strategy such as CESA or QD-labeled DNA probes. The as-prepared biosensor was successfully used to detect the miRNA of BRCA1 in human serum samples with acceptable stability, good reproducibility, and good recovery. The proposed DNA biosensor based on double signal amplification strategy provided a feasible, rapid, and sensitive platform for early clinical diagnosis and practical applications.


Asunto(s)
Técnicas Biosensibles/métodos , Genes BRCA1 , Ácidos Nucleicos Inmovilizados/química , MicroARNs/genética , Nanocompuestos/química , Compuestos de Cadmio/química , Desoxirribonucleasas/química , Técnicas Electroquímicas/métodos , Humanos , Ácidos Nucleicos Inmovilizados/genética , MicroARNs/sangre , Mutación , Puntos Cuánticos/química , Telurio/química
11.
Nature ; 566(7743): 259-263, 2019 02.
Artículo en Inglés | MEDLINE | ID: mdl-30728498

RESUMEN

Cytosolic DNA triggers innate immune responses through the activation of cyclic GMP-AMP synthase (cGAS) and production of the cyclic dinucleotide second messenger 2',3'-cyclic GMP-AMP (cGAMP)1-4. 2',3'-cGAMP is a potent inducer of immune signalling; however, no intracellular nucleases are known to cleave 2',3'-cGAMP and prevent the activation of the receptor stimulator of interferon genes (STING)5-7. Here we develop a biochemical screen to analyse 24 mammalian viruses, and identify poxvirus immune nucleases (poxins) as a family of 2',3'-cGAMP-degrading enzymes. Poxins cleave 2',3'-cGAMP to restrict STING-dependent signalling and deletion of the poxin gene (B2R) attenuates vaccinia virus replication in vivo. Crystal structures of vaccinia virus poxin in pre- and post-reactive states define the mechanism of selective 2',3'-cGAMP degradation through metal-independent cleavage of the 3'-5' bond, converting 2',3'-cGAMP into linear Gp[2'-5']Ap[3']. Poxins are conserved in mammalian poxviruses. In addition, we identify functional poxin homologues in the genomes of moths and butterflies and the baculoviruses that infect these insects. Baculovirus and insect host poxin homologues retain selective 2',3'-cGAMP degradation activity, suggesting an ancient role for poxins in cGAS-STING regulation. Our results define poxins as a family of 2',3'-cGAMP-specific nucleases and demonstrate a mechanism for how viruses evade innate immunity.


Asunto(s)
Desoxirribonucleasas/química , Desoxirribonucleasas/metabolismo , Proteínas de la Membrana/metabolismo , Nucleótidos Cíclicos/metabolismo , Nucleotidiltransferasas/metabolismo , Transducción de Señal/inmunología , Virus Vaccinia/enzimología , Animales , Baculoviridae/enzimología , Mariposas Diurnas/enzimología , Línea Celular , Secuencia Conservada , Cristalografía por Rayos X , ADN Viral/inmunología , Femenino , Genes Virales/genética , Humanos , Evasión Inmune , Inmunidad Innata/inmunología , Ratones , Ratones Endogámicos C57BL , Modelos Moleculares , Mariposas Nocturnas/enzimología , Sistemas de Mensajero Secundario , Virus Vaccinia/genética , Virus Vaccinia/crecimiento & desarrollo , Virus Vaccinia/inmunología , Replicación Viral/genética
12.
Int J Biol Macromol ; 127: 187-196, 2019 Apr 15.
Artículo en Inglés | MEDLINE | ID: mdl-30633932

RESUMEN

Rifampicin, an important member of ansamycin family, exhibits various biological activities. It is frequently used for the treatment of tuberculosis and leprosy. Recently, its interaction with protein is evidenced. But, its interaction with DNA is still unknown. Whether, exhibition of anti-cancer activity of rifampicin is associated with DNA-cleavage activity is also unknown. In this study, an attempt has been taken to understand these two unknown aspects. Spectroscopic studies indicated that rifampicin binds to CT-DNA with a binding constant of ~5.22 × 105 M-1. Several independent experiments like CD analysis, competitive displacement experiments and viscosity measurements revealed that rifampicin intercalates into the CT-DNA. Molecular docking studies corroborate this fact and depicted that this drug binds to the GC-rich region of DNA through multiple hydrogen bonding having the relative binding energy of -9.21 kcal mol-1. Besides, DNA binding ability, rifampicin causes the photo-cleavage of pUC19 DNA via singlet oxygen pathway. To the best of our knowledge, we report for the first time the DNA binding and DNA cleavage ability of rifampicin. This study provides a clue behind the execution of the anti-cancer activity of rifampicin. Overall, all these information can be used for further understanding the pharmacological effects of rifampicin.


Asunto(s)
Antibacterianos/química , ADN/química , Desoxirribonucleasas/química , Simulación del Acoplamiento Molecular , Rifampin/química , Enlace de Hidrógeno
13.
Bull Exp Biol Med ; 166(2): 287-292, 2018 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-30488196

RESUMEN

Based on the data of morphological analysis, we performed histological evaluation of rat tissue reaction to subcutaneous implantation of decellularized matrices of intrathoracic organs and tissues. Cell composition of the inflammatory infiltrate was analyzed, and the dynamics of macrophage and T and B lymphocyte content was assessed on days 7 and 14 of the experiment. It was found that the reaction to implantation depended not only on the quality of decellularization and efficiency of removal of antigen molecules, but also on the original histological structure and quality of preimplantation processing of the transplant.


Asunto(s)
Diafragma/ultraestructura , Matriz Extracelular/ultraestructura , Pulmón/ultraestructura , Ingeniería de Tejidos/métodos , Andamios del Tejido , Animales , Antígenos CD/inmunología , Antígenos CD/metabolismo , Linfocitos B/citología , Linfocitos B/inmunología , Biomarcadores/metabolismo , Ácido Desoxicólico/química , Ácido Desoxicólico/farmacología , Desoxirribonucleasas/química , Desoxirribonucleasas/farmacología , Diafragma/citología , Diafragma/efectos de los fármacos , Diafragma/trasplante , Matriz Extracelular/química , Corazón/efectos de los fármacos , Lectinas Tipo C/inmunología , Lectinas Tipo C/metabolismo , Pulmón/citología , Pulmón/efectos de los fármacos , Macrófagos/citología , Macrófagos/inmunología , Masculino , Receptor de Manosa , Lectinas de Unión a Manosa/inmunología , Lectinas de Unión a Manosa/metabolismo , Ratas , Ratas Wistar , Receptores de Superficie Celular/inmunología , Receptores de Superficie Celular/metabolismo , Piel , Linfocitos T/citología , Linfocitos T/inmunología , Trasplante Homólogo
14.
Nucleic Acids Res ; 46(21): 11303-11314, 2018 11 30.
Artículo en Inglés | MEDLINE | ID: mdl-30277537

RESUMEN

The Mre11-Rad50 complex is a DNA double-strand break sensor that cleaves blocked DNA ends and hairpins by an ATP-dependent endo/exonuclease activity for subsequent repair. For that, Mre11-Rad50 complexes, including the Escherichia coli homolog SbcCD, can endonucleolytically cleave one or both strands near a protein block and process free DNA ends via a 3'-5' exonuclease, but a unified basis for these distinct activities is lacking. Here we analyzed DNA binding, ATPase and nuclease reactions on different DNA substrates. SbcCD clips terminal bases of both strands of the DNA end in the presence of ATPγS. It introduces a DNA double-strand break around 20-25 bp from a blocked end after multiple rounds of ATP hydrolysis in a reaction that correlates with local DNA meltability. Interestingly, we find that nuclease reactions on opposing strands are chemically distinct, leaving a 5' phosphate on one strand, but a 3' phosphate on the other strand. Collectively, our results identify an unexpected chemical variability of the nuclease, indicating that the complex is oriented at a free DNA end and facing a block with opposite polarity. This suggests a unified model for ATP-dependent endo- and exonuclease reactions at internal DNA near a block and at free DNA ends.


Asunto(s)
ADN/metabolismo , Desoxirribonucleasas/metabolismo , Proteínas de Escherichia coli/metabolismo , Exonucleasas/metabolismo , Adenosina Trifosfato/metabolismo , ADN/química , Desoxirribonucleasas/química , Desoxirribonucleasas/genética , Proteínas de Escherichia coli/química , Proteínas de Escherichia coli/genética , Exonucleasas/química , Exonucleasas/genética , Polarización de Fluorescencia , Hidrólisis , Fosfatos/química , Fosfatos/metabolismo , Multimerización de Proteína
15.
J Inorg Biochem ; 187: 85-96, 2018 10.
Artículo en Inglés | MEDLINE | ID: mdl-30081333

RESUMEN

The bis-(1,10-phenanthroline)copper(I) complex, [Cu(I)(phen)2]+, was the first copper-based artificial nuclease reported in the literature. The biological and ligand-like properties of sulfonamides make them good candidates for fine-tuning the reactivity of the [Cu(phen)2] motif with biomolecules. In this context, we developed three novel copper(II) complexes containing the sulfonamides sulfameter (smtrH) and sulfadimethoxine (sdmxH) and (N^N)-bidentate ligands (2,2'-biyridine or 1,10-phenantroline). The compounds were characterized by chemical and spectroscopic techniques and single-crystal X-ray crystallography. When targeting plasmid DNA, the phen-containing compounds [Cu(smtr-)2(phen)] (1) and [Cu(sdmx-)2(phen)] (2) demonstrated nuclease activity even in the absence of reducing agents. Addition of ascorbic acid resulted in a complete cleavage of DNA by 1 and 2 at concentrations higher than 10 µM. Experiments designed to evaluate the copper intermediates involved in the nuclease effect after reaction with ascorbic acid identified at least the [Cu(I)(N^N)2]+, [Cu(I)(sulfa)(N^N)]+ and [Cu(I)(sulfa)2]+ species. The compounds interact with DNA via groove binding and intercalation as verified by fluorescence spectroscopy, circular dichroism (CD) and molecular docking. The magnitude and preferred mode of binding are dependent on the nature of both N^N ligand and the sulfonamide. The potent nuclease activity of compounds 1 and 2 are well correlated with their antiproliferative and anti-M. tuberculosis profiles. The results presented here demonstrated the potential for further development of copper(II)-sulfonamide-(N^N) complexes as multipurpose metallodrugs.


Asunto(s)
Antituberculosos , Proliferación Celular/efectos de los fármacos , Complejos de Coordinación , Cobre , Desoxirribonucleasas , Mycobacterium tuberculosis/crecimiento & desarrollo , Sulfonamidas , Antituberculosos/síntesis química , Antituberculosos/química , Antituberculosos/farmacología , Complejos de Coordinación/síntesis química , Complejos de Coordinación/química , Complejos de Coordinación/farmacología , Cobre/química , Cobre/farmacología , División del ADN/efectos de los fármacos , Desoxirribonucleasas/síntesis química , Desoxirribonucleasas/química , Desoxirribonucleasas/farmacología , Humanos , Células K562 , Células MCF-7 , Simulación del Acoplamiento Molecular , Sulfonamidas/química , Sulfonamidas/farmacología
16.
Nucleic Acids Res ; 46(19): 10119-10131, 2018 11 02.
Artículo en Inglés | MEDLINE | ID: mdl-30165463

RESUMEN

The RING finger protein TRAIP protects genome integrity and its mutation causes Seckel syndrome. TRAIP encodes a nucleolar protein that migrates to UV-induced DNA lesions via a direct interaction with the DNA replication clamp PCNA. Thus far, mechanistically how UV mobilizes TRAIP from the nucleoli remains unknown. We found that PCNA binding is dispensable for the nucleolus-nucleoplasm shuttling of TRAIP following cell exposure to UV irradiation, and that its redistribution did not rely on the master DNA damage kinases ATM and ATR. Interestingly, I-PpoI-induced ribosomal DNA damage led to TRAIP exclusion from the nucleoli, raising the possibility that active ribosomal DNA transcription may underlie TRAIP retention in the nuclear sub-compartments. Accordingly, chemical inhibition of RNA polymerase I activity led to TRAIP diffusion into the nucleoplasm, and was coupled with marked reduction of DNA/RNA hybrids in the nucleoli, suggesting that TRAIP may be sequestered via binding to nucleic acid structures in the nucleoli. Consistently, cell pre-treatment with DNase/RNase effectively released TRAIP from the nucleoli. Taken together, our study defines a bipartite mechanism that drives TRAIP trafficking in response to UV damage, and highlights the nucleolus as a stress sensor that contributes to orchestrating DNA damage responses.


Asunto(s)
Nucléolo Celular/metabolismo , ADN Ribosómico/genética , ARN Polimerasa I/genética , Transcripción Genética , Ubiquitina-Proteína Ligasas/genética , Proteínas de la Ataxia Telangiectasia Mutada/genética , Proteínas de la Ataxia Telangiectasia Mutada/metabolismo , Benzotiazoles/farmacología , Línea Celular Tumoral , Nucléolo Celular/efectos de la radiación , Nucléolo Celular/ultraestructura , Daño del ADN , ADN Ribosómico/metabolismo , Desoxirribonucleasas/química , Enanismo/genética , Enanismo/metabolismo , Enanismo/patología , Facies , Regulación de la Expresión Génica , Células HeLa , Humanos , Microcefalia/genética , Microcefalia/metabolismo , Microcefalia/patología , Naftiridinas/farmacología , Osteoblastos/metabolismo , Osteoblastos/patología , Osteoblastos/efectos de la radiación , Antígeno Nuclear de Célula en Proliferación/genética , Antígeno Nuclear de Célula en Proliferación/metabolismo , Transporte de Proteínas , ARN Polimerasa I/antagonistas & inhibidores , ARN Polimerasa I/metabolismo , Ribonucleasas/química , Ribosomas/genética , Ribosomas/metabolismo , Ubiquitina-Proteína Ligasas/metabolismo , Rayos Ultravioleta
17.
Fish Shellfish Immunol ; 78: 222-232, 2018 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-29680489

RESUMEN

The role of the nuclease, HARBI1-like protein (mjHARBI1-like) in the innate immunity of Marsupenaeus japonicus was explored in this study. The 1361 bp cDNA sequence of mjHARBI1-like was cloned from M. japonicus using RACE. RT-qPCR analysis results showed that the gills and hepatopancreas of M. japonicus were the main tissues where mjHARBI1-like is expressed. In addition, it was also found that white spot syndrome virus (WSSV) or Vibrio alginolyticus challenge could stimulate mjHARBI1-like expression. After mjHARBI1-likewas inhibited, expression of immune genes such as toll, p53, myosin, and proPO were significantly downregulated (P < 0.01). However, in shrimp hemocytes, hemocyanin and tumor necrosis factor-α (TNF-α) were up-regulated significantly (P < 0.01). This study demonstrated that mjHARBI1-like plays a key role in the progression of WSSV and V. alginolyticus infection. Specifically, the cumulative mortality of WSSV-infected and V. alginolyticus-infected shrimp was significantly advanced by double-strand RNA interference (dsRNAi) of mjHARBI1-like. Apoptosis studies indicated that mjHARBI1-dsRNA treatment caused a reduction in hemocyte apoptosis in bacterial and viral groups. In addition, phagocytosis experiments illustrated that mjHARBI1-dsRNA treatment led to a lower phagocytosis rate in hemocytes of V. alginolyticus-challenged shrimp. It was also found that knockdown of mjHARBI1-like inhibited shrimp phenoloxidase (PO) activity, superoxide dismutase (SOD) activity, and total hemocyte count (THC) after WSSV or V. alginolyticus infection. These data indicate a regulative role of mjHARBI1-likein the immunity of shrimp in response to pathogen infection. Resultantly, it was concluded that mjHARBI1-like might have a positive effect on the anti-WSSV immune response of shrimp by regulating apoptosis, THC, PO activity, and SOD activity. Additionally, mjHARBI1-like might promote anti-V. alginolyticus infection by participating in regulating phagocytosis, apoptosis, SOD activity, PO activity, and THC.


Asunto(s)
Desoxirribonucleasas/genética , Desoxirribonucleasas/inmunología , Regulación de la Expresión Génica/inmunología , Inmunidad Innata/genética , Penaeidae/genética , Penaeidae/inmunología , Secuencia de Aminoácidos , Animales , Proteínas de Artrópodos/química , Proteínas de Artrópodos/genética , Proteínas de Artrópodos/inmunología , Secuencia de Bases , Desoxirribonucleasas/química , Perfilación de la Expresión Génica , Filogenia , Alineación de Secuencia , Vibrio alginolyticus/fisiología , Virus del Síndrome de la Mancha Blanca 1/fisiología
18.
J Biochem ; 164(2): 165-171, 2018 Aug 01.
Artículo en Inglés | MEDLINE | ID: mdl-29659850

RESUMEN

Streptococcus pyogenes nuclease A (SpnA) and streptococcal 5' nucleosidase A (S5nA) are two recently described virulence factors from the human pathogen S. pyogenes. In vitro studies have shown that SpnA is a nuclease that cleaves ssDNA and dsDNA, including the DNA backbone of neutrophil extracellular traps. S5nA was shown to hydrolyse AMP and ADP, but not ATP, to generate the immunomodulatory molecule adenosine. S5nA also generates the macrophage-toxic deoxyadenosine from dAMP. However, detailed in vivo studies of the two enzymes have been hampered by difficulties with using current animal models for this exclusive human pathogen. Here we report the identification of two novel enzymes from the fish pathogen Streptococcus iniae that show similarities to SpnA and S5nA in amino acid sequence, protein domain structure and biochemical properties. We propose that SpnAi and S5nAi are orthologues of the S. pyogenes enzymes, providing a rationale to analyse the in vivo function of the two enzymes using a S. iniae-zebrafish infection model.


Asunto(s)
5'-Nucleotidasa/metabolismo , Desoxirribonucleasas/metabolismo , Streptococcus iniae/enzimología , Streptococcus pyogenes/enzimología , 5'-Nucleotidasa/química , Secuencia de Aminoácidos , Animales , Desoxirribonucleasas/química , Modelos Animales de Enfermedad , Conformación Proteica , Infecciones Estreptocócicas/metabolismo , Pez Cebra
19.
Anal Chem ; 90(3): 2395-2400, 2018 02 06.
Artículo en Inglés | MEDLINE | ID: mdl-29308636

RESUMEN

Abnormal expression of miRNAs always occurs in solid tumors. Thus, it is critical to sensitively and selectively detect such biomarkers for the diagnosis and prognosis of diseases. Here, we report a biosensing scheme for the determination of miRNA with triple signal amplification based on target-triggered cyclic duplex specific nuclease digestion and bridge DNA-gold nanoparticles. Electrochemical signals are recorded to present initial levels of miRNA. This method is ultrasensitive with a wide linear range of 10-17 to 10-11 M. The limit of detection is down to 6.8 aM. Moreover, the overexpression of miR-21 is confirmed in lung cancer patients by the proposed method, which is in good accordance with qRT-PCR results. In addition, the developed biosensor does not need a reverse transcription process or any thermal cycling processes. Its performance satisfies the requirement for convenient, rapid, sensitive, and specific early diagnosis of cancers. Therefore, it may have great potential utility in the near future.


Asunto(s)
ADN/química , Desoxirribonucleasas/química , Oro/química , Nanopartículas del Metal/química , MicroARNs/sangre , Técnicas de Amplificación de Ácido Nucleico/métodos , Animales , Anomuros/enzimología , Biomarcadores de Tumor/sangre , Técnicas Biosensibles/métodos , Técnicas Electroquímicas/métodos , Humanos , Límite de Detección , Hibridación de Ácido Nucleico
20.
J Inorg Biochem ; 179: 121-134, 2018 02.
Artículo en Inglés | MEDLINE | ID: mdl-29222969

RESUMEN

A series of tripodal ligands based on the 2-tert-butyl-4-R-6-phenol was synthesized, where R=aldehyde (HL1), R=putrescine-pyrene (HL2) and R=putrescine (HL3). A dinucleating ligand wherein a putrescine group connects two tripodal moieties was also prepared (H2L4). The corresponding copper complexes (1, 2, 3, and 4, respectively) were prepared and characterized. We determined the phenol's pKas in the range 2.47-3.93. The DNA binding constants were determined at 6×106, 5.5×105 and 2.7×106 for 2, 3 and 4, respectively. The complexes display a metal-centered reduction wave at Epc,red=-0.45 to -0.5V vs. saturated calomel electrode, as well as a ligand-centered oxidation wave above 0.57V at pH7. In the presence of ascorbate they promote an efficient cleavage of DNA, with for example a concentration required to cleave 50% of supercoiled DNA of 1.7µM for 2. The nuclease activity is affected by the nature of the R group: putrescine-pyrene≈bis-ligating>putrescine>aldehyde. The species responsible for strand scission is the hydroxyl radical. The cytotoxicity of the complexes was evaluated on bladder cancer cell lines sensitive or resistant to cis-platin. The IC50 of complexes 2 and 4 span over a short range (1.3-2µM) for the two cell lines. They are lower than those of the other complexes (3.1-9.7µM) and cis-platin. The most active compounds block the cell cycle at the G0/1 phase and promote apoptosis.


Asunto(s)
Antineoplásicos/farmacología , Complejos de Coordinación/farmacología , Cobre/química , División del ADN/efectos de los fármacos , Animales , Antineoplásicos/síntesis química , Antineoplásicos/química , Apoptosis/efectos de los fármacos , Línea Celular Tumoral , Chlorocebus aethiops , Complejos de Coordinación/síntesis química , Complejos de Coordinación/química , ADN Superhelicoidal/química , Desoxirribonucleasas/química , Puntos de Control de la Fase G1 del Ciclo Celular/efectos de los fármacos , Humanos , Ligandos , Modelos Químicos , Estructura Molecular , Oxidación-Reducción , Putrescina/análogos & derivados , Putrescina/síntesis química , Putrescina/química , Putrescina/farmacología , Pirenos/síntesis química , Pirenos/química , Pirenos/farmacología , Células Vero
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