Abstract:
:The DNA excision repair protein ERCC-1-DNA repair endonuclease XPF (ERCC1-XPF) is a heterodimeric endonuclease essential for the nucleotide excision repair (NER) DNA repair pathway. Although its activity is required to maintain genome integrity in healthy cells, ERCC1-XPF can counteract the effect of DNA-damaging therapies such as platinum-based chemotherapy in cancer cells. Therefore, a promising approach to enhance the effect of these therapies is to combine their use with small molecules, which can inhibit the repair mechanisms in cancer cells. Currently, there are no structures available for the catalytic site of the human ERCC1-XPF, which performs the metal-mediated cleavage of a DNA damaged strand at 5′. We adopted a homology modeling strategy to build a structural model of the human XPF nuclease domain which contained the active site and to extract dominant conformations of the domain using molecular dynamics simulations followed by clustering of the trajectory. We investigated the binding modes of known small molecule inhibitors targeting the active site to build a pharmacophore model. We then performed a virtual screening of the ZINC Is Not Commercial 15 (ZINC15) database to identify new ERCC1-XPF endonuclease inhibitors. Our work provides structural insights regarding the binding mode of small molecules targeting the ERCC1-XPF active site that can be used to rationally optimize such compounds. We also propose a set of new potential DNA repair inhibitors to be considered for combination cancer therapy strategies.
journal_name
Int J Mol Scijournal_title
International journal of molecular sciencesauthors
Gentile F,Barakat KH,Tuszynski JAdoi
10.3390/ijms19051328subject
Has Abstractpub_date
2018-04-30 00:00:00issue
5issn
1422-0067pii
ijms19051328journal_volume
19pub_type
杂志文章abstract::When isolated from mammalian cell nuclei, all nuclear pre-mRNAs are packaged in multi-subunit large ribonucleoprotein complexes-supraspliceosomes-composed of four native spliceosomes interconnected by the pre-mRNA. Supraspliceosomes contain all five spliceosomal U snRNPs, together with other splicing factors, and are ...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms150711637
更新日期:2014-06-30 00:00:00
abstract::Paracrine factors can induce cardiac regeneration and repair post myocardial infarction by stimulating proliferation of cardiac cells and inducing the anti-fibrotic, antiapoptotic, and immunomodulatory effects of angiogenesis. Here, we screened a human secretome library, consisting of 923 growth factors, cytokines, an...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20236037
更新日期:2019-11-30 00:00:00
abstract::Recent data show that cardiac hypertrophy contributes substantially to the overall heart failure burden. Mitochondrial dysfunction is a common feature of cardiac hypertrophy. Recent studies have reported that isosteviol inhibits myocardial ischemia-reperfusion injury in guinea pigs and H9c2 cells. This work investigat...
journal_title:International journal of molecular sciences
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更新日期:2020-01-20 00:00:00
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journal_title:International journal of molecular sciences
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doi:10.3390/ijms16048337
更新日期:2015-04-14 00:00:00
abstract::Primary biliary cholangitis (PBC) is an immune-mediated cholestatic disease. Vitamin D receptor (VDR)-dependent signaling constrains an inflammatory response by targeting the miRNA155-SOCS1 (suppressor of cytokine signaling 1) axis. The VDR-miRNA155-SOCS1 pathway was investigated in the context of the autoimmune respo...
journal_title:International journal of molecular sciences
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更新日期:2017-01-29 00:00:00
abstract::Kaempferol, a flavonoid compound, is derived from the rhizome of Kaempferia galanga L., which is used in traditional medicine in Asia. Autophagy has pleiotropic functions that are involved in cell growth, survival, nutrient supply under starvation, defense against pathogens, and antigen presentation. There are many st...
journal_title:International journal of molecular sciences
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doi:10.3390/ijms19010125
更新日期:2018-01-02 00:00:00
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journal_title:International journal of molecular sciences
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doi:10.3390/ijms13056220
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abstract::To learn more about the structure-activity relationships of (E)-3-(5-styryl-1,3,4-oxadiazol-2-yl)benzenesulfonamide derivatives, which in our previous research displayed promising in vitro anticancer activity, we have synthesized a group of novel (E)-5-[(5-(2-arylvinyl)-1,3,4-oxadiazol-2-yl)]-4-chloro-2-R1-benzenesulf...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms21062235
更新日期:2020-03-23 00:00:00
abstract::Rheumatoid arthritis (RA) is a chronic, inflammatory, and systemic autoimmune disease that affects the connective tissue and primarily the joints. If not treated, RA ultimately leads to progressive cartilage and bone degeneration. The etiology of the pathogenesis of RA is unknown, demonstrating heterogeneity in its cl...
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journal_title:International journal of molecular sciences
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doi:10.3390/ijms20246135
更新日期:2019-12-05 00:00:00
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journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms19092756
更新日期:2018-09-13 00:00:00
abstract::A variety of Magnetic Resonance (MR) and nuclear medicine (NM) techniques have been used in symptomatic and presymptomatic SCA2 gene carriers to explore,in vivo, the physiopathological biomarkers of the neurological dysfunctions characterizing the associated progressive disease that presents with a cerebellar syndrome...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms21031020
更新日期:2020-02-04 00:00:00
abstract::Glioblastoma multiforme (GBM) is the most common type of primary and malignant tumor occurring in the adult central nervous system. GBM often invades surrounding regions of the brain during its early stages, making successful treatment difficult. Osthole, an active constituent isolated from the dried C. monnieri fruit...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms15033889
更新日期:2014-03-04 00:00:00
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journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms15022858
更新日期:2014-02-19 00:00:00
abstract::Bull spermatozoa physiology may be modulated by melatonin. We washed ejaculated spermatozoa free of melatonin and incubated them (4 h, 38 °C) with 0-pM, 1-pM, 100-pM, 10-nM and 1-µM melatonin in TALP-HEPES (non-capacitating) and TALP-HEPES-heparin (capacitating). This range of concentrations encompassed the effects me...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms21082701
更新日期:2020-04-13 00:00:00
abstract::The TEAD family of transcription factors is necessary for developmental processes. The family members contain a TEA domain for the binding with DNA elements and a transactivation domain for the interaction with transcription coactivators. TEAD proteins are required for the participation of coactivators to transmit the...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms17010138
更新日期:2016-01-21 00:00:00
abstract::Dry fruits consist of two types, dehiscent and indehiscent, whereby the fruit is splitting open or remains closed at maturity, respectively. The seed, the dispersal unit (DU) of dehiscent fruits, is composed of three major parts, the embryo and the food reserve, encapsulated by the maternally-derived organ, the seed c...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms21218024
更新日期:2020-10-28 00:00:00
abstract::Understanding the importance of oral microbiota in human health and disease also leads to an expansion of the knowledge on functional, metabolic, and molecular alterations directly contributing to oral and systemic pathologies. To date, a compelling number of studies have documented the crucial role of some oral cavit...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms21217914
更新日期:2020-10-24 00:00:00
abstract::Extracellular vesicles (EVs), including exosomes and microvesicles, are nano-to-micrometer vesicles released from nearly all cellular types. EVs comprise a mixture of bioactive molecules (e.g., mRNAs, miRNAs, lipids, and proteins) that can be transported to the targeted cells/tissues via the blood or lymph circulation...
journal_title:International journal of molecular sciences
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doi:10.3390/ijms21145163
更新日期:2020-07-21 00:00:00
abstract::Mineralization of hydrogel biomaterials with calcium phosphate (CaP) is considered advantageous for bone regeneration. Mineralization can be both induced by the enzyme alkaline phosphatase (ALP) and promoted by calcium-binding biomolecules, such as plant-derived polyphenols. In this study, ALP-loaded gellan gum (GG) h...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms21072315
更新日期:2020-03-27 00:00:00
abstract:OBJECTIVES:Data on pregnancy long-term effects on multiple sclerosis (MS) course are still controversial; whether experiencing more than one pregnancy exposes one to risk of the disability's accrual is still unknown. We investigated differences existing in terms of disability progression among women with MS (wwMS) who ...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms17020234
更新日期:2016-02-12 00:00:00
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journal_title:International journal of molecular sciences
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doi:10.3390/ijms20123098
更新日期:2019-06-25 00:00:00
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journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms17070997
更新日期:2016-06-24 00:00:00
abstract::The circadian clock has a critical role in many physiological functions of skeletal muscle and is essential to fully understand the precise underlying mechanisms involved in these complex interactions. The importance of circadian expression for structure, function and metabolism of skeletal muscle is clear when observ...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms20174318
更新日期:2019-09-03 00:00:00
abstract::Circular dichroism (CD) is a useful technique for monitoring changes in the conformation of antimicrobial peptides or gelatin. In this study, interactions between cationic peptides and gelatin were observed without affecting the triple helical content of the gelatin, which was more strongly affected by anionic surfact...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms13033229
更新日期:2012-01-01 00:00:00
abstract::The first algorithm for Emulsion Stability Simulations (ESS) was presented at the V Conferencia Iberoamericana sobre Equilibrio de Fases y Diseño de Procesos [Luis, J.; García-Sucre, M.; Urbina-Villalba, G. Brownian Dynamics Simulation of Emulsion Stability In: Equifase 99. Libro de Actas, 1(st) Ed., Tojo J., Arce, A....
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms10030761
更新日期:2009-03-01 00:00:00
abstract::Benign prostate hyperplasia (BPH) is one of the most common urological problems in mid-aged to elderly men. Risk factors of BPH include family history, obesity, type 2 diabetes, and high oxidative stress. The main medication classes for BPH management are alpha blockers and 5α-reductase inhibitors. However, these conv...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms19041137
更新日期:2018-04-10 00:00:00
abstract::This review focuses on the role of 5'-activated protein kinase (AMPK) in the effects of resveratrol (RSV) and some RSV derivatives on hepatic steatosis. In vitro studies, performed in different hepatic cell models, have demonstrated that RSV is effective in preventing liver TG accumulation by activating AMPK, due to i...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms19113473
更新日期:2018-11-05 00:00:00
abstract::In Arabidopsis basal hypocotyls of dark-grown seedlings, xylary cells may form from the pericycle as an alternative to adventitious roots. Several hormones may induce xylogenesis, as Jasmonic acid (JA), as well as indole-3-acetic acid (IAA) and indole-3-butyric acid (IBA) auxins, which also affect xylary identity. Stu...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20184469
更新日期:2019-09-10 00:00:00
abstract::Parkinson's disease (PD) is the second most common neurodegenerative disorder worldwide, mainly affecting the elderly. The disease progresses gradually, with core motor presentations and a multitude of non-motor manifestations. There are two neuropathological hallmarks of PD, the dopaminergic neuronal loss and the alp...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms20215312
更新日期:2019-10-25 00:00:00