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Protein dna interaction

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https://www.readbyqxmd.com/read/29471495/arginine-methylation-of-the-c-terminus-rgg-motif-promotes-top3b-topoisomerase-activity-and-stress-granule-localization
#1
Lifeng Huang, Zhihao Wang, Nithya Narayanan, Yanzhong Yang
DNA topoisomerase 3B (TOP3B) is unique among all mammalian topoisomerases for its dual activities that resolve both DNA and RNA topological entanglements to facilitate transcription and translation. However, the mechanism by which TOP3B activity is regulated is still elusive. Here, we have identified arginine methylation as an important post-translational modification (PTM) for TOP3B activity. Protein arginine methyltransferase (PRMT) 1, PRMT3 and PRMT6 all methylate TOP3B in vitro at its C-terminal arginine (R) and glycine (G)-rich motif...
February 19, 2018: Nucleic Acids Research
https://www.readbyqxmd.com/read/29470422/fragment-based-discovery-of-inhibitors-of-the-bacterial-dnag-ssb-interaction
#2
Zorik Chilingaryan, Stephen J Headey, Allen T Y Lo, Zhi-Qiang Xu, Gottfried Otting, Nicholas E Dixon, Martin J Scanlon, Aaron J Oakley
In bacteria, the DnaG primase is responsible for synthesis of short RNA primers used to initiate chain extension by replicative DNA polymerase(s) during chromosomal replication. Among the proteins with which Escherichia coli DnaG interacts is the single-stranded DNA-binding protein, SSB. The C-terminal hexapeptide motif of SSB (DDDIPF; SSB-Ct) is highly conserved and is known to engage in essential interactions with many proteins in nucleic acid metabolism, including primase. Here, fragment-based screening by saturation-transfer difference nuclear magnetic resonance (STD-NMR) and surface plasmon resonance assays identified inhibitors of the primase/SSB-Ct interaction...
February 22, 2018: Antibiotics
https://www.readbyqxmd.com/read/29468562/pkc%C3%AE-knockout-mice-are-protected-from-dextromethorphan-induced-serotonergic-behaviors-in-mice-involvements-of-downregulation-of-5-ht-1a-receptor-and-upregulation-of-nrf2-dependent-gsh-synthesis
#3
Hai-Quyen Tran, Youngho Lee, Eun-Joo Shin, Choon-Gon Jang, Ji Hoon Jeong, Akihiro Mouri, Kuniaki Saito, Toshitaka Nabeshima, Hyoung-Chun Kim
We investigated whether a specific serotonin (5-HT) receptor-mediated mechanism was involved in dextromethorphan (DM)-induced serotonergic behaviors. We firstly observed that the activation of 5-HT1A receptor, but not 5-HT2A receptor, contributed to DM-induced serotonergic behaviors in mice. We aimed to determine whether the upregulation of 5-HT1A receptor induced by DM facilitates the specific induction of certain PKC isoform, because previous reports suggested that 5-HT1A receptor activates protein kinase C (PKC)...
February 22, 2018: Molecular Neurobiology
https://www.readbyqxmd.com/read/29468542/detection-of-aberrant-dna-methylation-patterns-in-the-rb1-gene
#4
Sumadi Lukman Anwar, Ulrich Lehmann
The retinoblastoma protein (pRb) plays a central role in the regulation of cell cycle by interaction with members of the E2F transcription factor family. As a tumor suppressor protein, pRb is frequently dysregulated in several major cancers. In addition to mutations, inactivation of pRb is also caused by epigenetic mechanisms including alterations of DNA methylation. There are three CpG islands located within the RB1 gene that encodes pRb that are closely associated with the regulation of pRb expression. Aberrant DNA methylation at the RB1 gene has been reported in sporadic retinoblastoma as well as other cancers including glioblastoma, hepatocellular carcinoma, and breast cancer...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29467879/loss-of-cdx2-gene-expression-is-associated-with-dna-repair-proteins-and-is-a-crucial-member-of-the-wnt-signaling-pathway-in-liver-metastasis-of-colorectal-cancer
#5
Csaba Tóth, Farkas Sükösd, Erzsébet Valicsek, Esther Herpel, Peter Schirmacher, László Tiszlavicz
Caudal type homeobox 2 (CDX2) has been well-established as a diagnostic marker for colorectal cancer (CRC); however, less is known about its regulation, particularly its potential interactions with the DNA repair proteins, adenomatous polyposis coli (APC) and β-catenin, in a non-transcriptional manner. In the present study, the protein expression of CDX2 was analyzed, depending on the expression of the DNA repair proteins, mismatch repair (MMR), O6-methylguanine DNA methyltransferase (MGMT) and excision repair cross-complementing 1 (ERCC1), and its importance in Wnt signaling was also determined...
March 2018: Oncology Letters
https://www.readbyqxmd.com/read/29467738/worlds-apart-transcriptome-profiles-of-key-oral-microbes-in-the-periodontal-pocket-compared-to-single-laboratory-culture-reflect-synergistic-interactions
#6
Zhi-Luo Deng, Helena Sztajer, Michael Jarek, Sabin Bhuju, Irene Wagner-Döbler
Periodontitis is a worldwide prevalent oral disease which results from dysbiosis of the periodontal microbiome. Some of the most active microbial players, e.g., Porphyromonas gingivalis, Treponema denticola , and Fusobacterium nucleatum , have extensively been studied in the laboratory, but it is unclear to which extend these findings can be transferred to in vivo conditions. Here we show that the transcriptional profiles of P. gingivalis, T. denticola , and F. nucleatum in the periodontal niche are distinct from those in single laboratory culture and exhibit functional similarities...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29467286/viral-insulin-like-peptides-activate-human-insulin-and-igf-1-receptor-signaling-a-paradigm-shift-for-host-microbe-interactions
#7
Emrah Altindis, Weikang Cai, Masaji Sakaguchi, Fa Zhang, Wang GuoXiao, Fa Liu, Pierre De Meyts, Vasily Gelfanov, Hui Pan, Richard DiMarchi, C Ronald Kahn
Viruses are the most abundant biological entities and carry a wide variety of genetic material, including the ability to encode host-like proteins. Here we show that viruses carry sequences with significant homology to several human peptide hormones including insulin, insulin-like growth factors (IGF)-1 and -2, FGF-19 and -21, endothelin-1, inhibin, adiponectin, and resistin. Among the strongest homologies were those for four viral insulin/IGF-1-like peptides (VILPs), each encoded by a different member of the family Iridoviridae VILPs show up to 50% homology to human insulin/IGF-1, contain all critical cysteine residues, and are predicted to form similar 3D structures...
February 21, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29467217/hp1%C3%AE-targets-the-chromosomal-passenger-complex-for-activation-at-heterochromatin-before-mitotic-entry
#8
Jan G Ruppert, Kumiko Samejima, Melpomeni Platani, Oscar Molina, Hiroshi Kimura, A Arockia Jeyaprakash, Shinya Ohta, William C Earnshaw
The chromosomal passenger complex (CPC) is directed to centromeres during mitosis via binding to H3T3ph and Sgo1. Whether and how heterochromatin protein 1α (HP1α) influences CPC localisation and function during mitotic entry is less clear. Here, we alter HP1α dynamics by fusing it to a CENP-B DNA-binding domain. Tethered HP1 strongly recruits the CPC, destabilising kinetochore-microtubule interactions and activating the spindle assembly checkpoint. During mitotic exit, the tethered HP1 traps active CPC at centromeres...
February 21, 2018: EMBO Journal
https://www.readbyqxmd.com/read/29467196/specific-activation-of-the-alternative-cardiac-promoter-of-cacna1c-by-the-mineralocorticoid-receptor
#9
Thassio R Mesquita, Gaelle Auguste, Debora Falcón, Gema Ruiz-Hurtado, Rogelio Salazar-Enciso, Jessica Sabourin, Florence Lefebvre, Say Viengchareun, Hussein Kobeissy, Patrick Lechêne, Valerie Nicolas, Amaya Fernández-Celis, Susana Gomez, Sandra Lauton-Santos, Eric Morel, Angelica Rueda, Natalia López-Andrés, Ana M Gomez, Marc Lombes, Jean-Pierre Benitah
<u>Rationale:</u> The mineralocorticoid receptor (MR) antagonists belong to the current therapeutic armamentarium for the management of cardiovascular diseases, but the mechanisms conferring their beneficial effects are poorly understood. Part of the cardiovascular effects of MR are due to the regulation of L-type Cav 1.2 Ca2+ channel expression, which is generated by tissue-specific alternative promoters as a long 'cardiac' (Cav 1.2-LNT) or a short 'vascular' (Cav 1.2-SNT) N-terminal transcripts...
February 21, 2018: Circulation Research
https://www.readbyqxmd.com/read/29465975/an-integrated-approach-based-on-dna-self-assemble-technique-for-characterization-of-crosstalk-among-combinatorial-histone-modifications
#10
Xue Bai, Wenjing Bi, Hanyang Dong, Pu Chen, Shanshan Tian, Guijin Zhai, Kai Zhang
Combinatorial histone post-translational modifications (HPTMs) form a complex epigenetic code that can be decoded by specific binding proteins, termed as reader. Their specific interplays have been thought to determine gene expression and downstream biological functions. However, it is still a big challenge to analyze such interaction due to various limitations including rather weak, transient and complicated interactions between HPTMs and readers, the high dynamic property of HPTMs as well as the low abundance of reader proteins...
February 21, 2018: Analytical Chemistry
https://www.readbyqxmd.com/read/29464072/limd1-is-induced-by-and-required-for-lmp1-signaling-and-protects-ebv-transformed-cells-from-dna-damage-induced-cell-death
#11
Ling Wang, Mary E A Howell, Brooke McPeak, Katrina Riggs, Carissa Kohne, Jether Uel Yohanon, Daniel E Foxler, Tyson V Sharp, Jonathan P Moorman, Zhi Q Yao, Shunbin Ning
LIMD1 (LIM domain-containing protein 1) is considered as a tumor suppressor, being deregulated in many cancers to include hematological malignancies; however, very little is known about the underlying mechanisms of its deregulation and its roles in carcinogenesis. Epstein-Barr Virus (EBV) is associated with a panel of malignancies of lymphocytic and epithelial origin. Using high throughput expression profiling, we have previously identified LIMD1 as a common marker associated with the oncogenic transcription factor IRF4 in EBV-related lymphomas and other hematological malignancies...
January 19, 2018: Oncotarget
https://www.readbyqxmd.com/read/29463775/the-transcriptional-coactivator-ada2b-recruits-a-structural-maintenance-protein-to-double-strand-breaks-during-dna-repair-in-plants
#12
Jianbin Lai, Jieming Jiang, Qian Wu, Ning Mao, Danlu Han, Huan Hu, Chengwei Yang
DNA damage occurs in all cells and can hinder chromosome stability and cell viability. Structural Maintenance of Chromosomes 5/6 (SMC5/6) is a protein complex that functions as an evolutionarily conserved chromosomal ATPase critical for repairing DNA double-strand breaks (DSBs). However, the mechanisms regulating this complex in plants are poorly understood. Here, we identified the transcriptional coactivator ALTERATION/DEFICIENCY IN ACTIVATION 2B (ADA2b) as an interactor of SMC5 in Arabidopsis thaliana. ADA2b is a conserved component of the Spt-Ada-Gcn5 acetyltransferase (SAGA) complex, which functions in transcriptional regulation...
February 20, 2018: Plant Physiology
https://www.readbyqxmd.com/read/29463315/x-chromosome-dosage-and-presence-of-sry-shape-sex-specific-differences-in-dna-methylation-at-an-autosomal-region-in-human-cells
#13
Bianca Ho, Keelin Greenlaw, Abeer Al Tuwaijri, Sanny Moussette, Francisco Martínez, Elisa Giorgio, Alfredo Brusco, Giovanni Battista Ferrero, Natália D Linhares, Eugênia R Valadares, Marta Svartman, Vera M Kalscheuer, Germán Rodríguez Criado, Catherine Laprise, Celia M T Greenwood, Anna K Naumova
BACKGROUND: Sexual dimorphism in DNA methylation levels is a recurrent epigenetic feature in different human cell types and has been implicated in predisposition to disease, such as psychiatric and autoimmune disorders. To elucidate the genetic origins of sex-specific DNA methylation, we examined DNA methylation levels in fibroblast cell lines and blood cells from individuals with different combinations of sex chromosome complements and sex phenotypes focusing on a single autosomal region--the differentially methylated region (DMR) in the promoter of the zona pellucida binding protein 2 (ZPBP2) as a reporter...
February 20, 2018: Biology of Sex Differences
https://www.readbyqxmd.com/read/29461656/identification-and-characterization-of-acetyltransferase-type-toxin-antitoxin-loci-in-klebsiella-pneumoniae
#14
Hongliang Qian, Qingqing Yao, Cui Tai, Zixin Deng, Jianhua Gan, Hong-Yu Ou
A type II toxin-antitoxin (TA) system, in which the toxin contains a Gcn5-related N-acetyltransferase (GNAT) domain, has been characterized recently. GNAT toxin acetylates aminoacyl-tRNA and blocks protein translation. It is abolished by the cognate antitoxin that contains the ribbon-helix-helix (RHH) domain. Here, we present an experimental demonstration of the interaction of the GNAT-RHH complex with TA promoter DNA. First, the GNAT-RHH TA locus kacAT was found in Klebsiella pneumoniae HS11286, a strain resistant to multiple antibiotics...
February 20, 2018: Molecular Microbiology
https://www.readbyqxmd.com/read/29461549/force-determination-in-lateral-magnetic-tweezers-combined-with-tirf-microscopy
#15
J Madariaga-Marcos, S Hormeño, C L Pastrana, G L M Fisher, M S Dillingham, F Moreno-Herrero
Combining single-molecule techniques with fluorescence microscopy has attracted much interest because it allows the correlation of mechanical measurements with directly visualized DNA : protein interactions. In particular, its combination with total internal reflection fluorescence microscopy (TIRF) is advantageous because of the high signal-to-noise ratio this technique achieves. This, however, requires stretching long DNA molecules across the surface of a flow cell to maximize polymer exposure to the excitation light...
February 20, 2018: Nanoscale
https://www.readbyqxmd.com/read/29459768/oncoprotein-tudor-sn-is-a-key-determinant-providing-survival-advantage-under-dna-damaging-stress
#16
Xiao Fu, Chunyan Zhang, Hao Meng, Kai Zhang, Lei Shi, Cheng Cao, Ye Wang, Chao Su, Lingbiao Xin, Yuanyuan Ren, Wei Zhang, Xiaoming Sun, Lin Ge, Olli Silvennoinen, Zhi Yao, Xi Yang, Jie Yang
Herein, Tudor-SN was identified as a DNA damage response (DDR)-related protein that plays important roles in the early stage of DDR. X-ray or laser irradiation could evoke the accumulation of Tudor-SN to DNA damage sites in a poly(ADP-ribosyl)ation-dependent manner via interaction with PARP-1. Additionally, we illustrated that the SN domain of Tudor-SN mediated the association of these two proteins. The accumulated Tudor-SN further recruited SMARCA5 (ATP-dependent chromatin remodeller) and GCN5 (histone acetyltransferase) to DNA damage sites, resulting in chromatin relaxation, and consequently activating the ATM kinase and downstream DNA repair signalling pathways to promote cell survival...
February 19, 2018: Cell Death and Differentiation
https://www.readbyqxmd.com/read/29459360/phosphorylation-of-bach1-switches-its-function-from-transcription-factor-to-mitotic-chromosome-regulator-and-promotes-its-interaction-with-hmmr
#17
Jie Li, Hiroki Shima, Hironari Nishizawa, Masatoshi Ikeda, Andrey Brydun, Mitsuyo Matsumoto, Hiroki Kato, Yuriko Saiki, Liang Liu, Miki Watanabe-Matsui, Kenji Iemura, Kozo Tanaka, Takuma Shiraki, Kazuhiko Igarashi
The transcription repressor BACH1 performs mutually independent dual roles in transcription regulation as well as chromosome alignment during mitosis by supporting polar ejection force of mitotic spindle. We now found that the mitotic spindles became oblique relative to the adhesion surface following endogenous BACH1 depletion in HeLa cells. This spindle orientation rearrangement was rescued by re-expression of BACH1 depending on its interactions with HMMR and CRM1, both of which are required for the positioning of mitotic spindle, but independently of its DNA binding activity...
February 19, 2018: Biochemical Journal
https://www.readbyqxmd.com/read/29459276/cytotoxicity-of-%C3%AE-6-areneruthenium-based-molecules-to-glioblastoma-cells-and-their-recognition-by-multidrug-abc-transporters
#18
Jaqueline Pazinato, Otávio M Cruz, Karine P Naidek, Amanda R A Pires, Eduard Westphal, Hugo Gallardo, Hélène Baubichon-Cortay, Maria E M Rocha, Glaucia R Martinez, Sheila M B Winnischofer, Attilio Di Pietro, Herbert Winnischofer
A new series of amphiphilic η6 -areneruthenium(II) compounds containing phenylazo ligands (group I: compounds 1a, 1b, 2a and 2b) and phenyloxadiazole ligands (group II: compounds 3a, 3b, 4a and 4b) were synthesized and characterized for their anti-glioblastoma activity. The effects of the amphiphilic η6 -areneruthenium(II) complexes on the viability of three human glioblastoma cell lines, U251, U87MG and T98G, were evaluated. The azo-derivative ruthenium complexes (group I) showed high cytotoxicity to all cell lines, whilst most oxadiazole-derivative complexes (group II) were less cytotoxic, except for compound 4a...
February 12, 2018: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/29459183/transcriptional-differences-between-smokers-and-non-smokers-and-variance-by-obesity-as-a-risk-factor-for-human-sensitivity-to-environmental-exposures
#19
Maria Nikodemova, Jeremiah Yee, Patrick R Carney, Christopher A Bradfield, Kristen Mc Malecki
BACKGROUND: Obesity has been shown to alter response to air pollution and smoking but underlying biological mechanisms are largely unknown and few studies have explored mechanisms by which obesity increases human sensitivity to environmental exposures. OBJECTIVE: Overall study goals were to investigate whole blood gene expression in smokers and non-smokers to examine associations between cigarette smoke and changes in gene expression by obesity status and test for effect modification...
February 16, 2018: Environment International
https://www.readbyqxmd.com/read/29459030/multifaceted-nucleolin-protein-and-its-molecular-partners-in-oncogenesis
#20
Iva Ugrinova, Maria Petrova, Mounira Chalabi-Dchar, Philippe Bouvet
Discovered in 1973, nucleolin is one of the most abundant phosphoproteins of the nucleolus. The ability of nucleolin to be involved in many cellular processes is probably related to its structural organization and its capability to form many different interactions with other proteins. Many functions of nucleolin affect cellular processes involved in oncogenesis-for instance: in ribosome biogenesis; in DNA repair, remodeling, and genome stability; in cell division and cell survival; in chemokine and growth factor signaling pathways; in angiogenesis and lymphangiogenesis; in epithelial-mesenchymal transition; and in stemness...
2018: Advances in Protein Chemistry and Structural Biology
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