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FEBS Letters

Longmei Zhai, Chaohua Sun, Yi Feng, Duyue Li, Xiaofen Chai, Lei Wang, Qiran Sun, Guifen Zhang, Yi Li, Ting Wu, Xinzhong Zhang, Xuefeng Xu, Yi Wang, Zhenhai Han
Understanding the mechanism of iron (Fe)-deficiency responses is crucial for improving plant Fe bioavailability. Here, we found that the Arabidopsis Rho-like GTPase 6 mutant (rop6) is less sensitive to Fe-deficiency responses and has reduced levels of reactive oxygen species (ROS) compared to wild type (WT), while AtROP6 overexpressing seedlings exhibit more sensitivity to Fe-deficiency responses and has higher levels of ROS compared to WT. Moreover, treatment with H2 O2 improves the sensitivity to Fe-deficiency responses in rop6 mutants...
September 20, 2018: FEBS Letters
Dongxin Zhao, Kui Lu, Guangbin Liu, Li Ma, Hanjing Zhu, Juan He
Mutations in breast cancer susceptibility gene 2 (BRCA2) can lead to chromosomal instability and result in breast cancer, which is strongly associated with p53 mutations. Here, based on the crystal structure of BRC4 and p53, the spatial structure of BRC2 and p53(171-192) was simulated, providing structural basis for the site-specific mutation of BRC2. The BRC analogous peptides and p53(171-192) were synthesized, and the interaction between the mutant peptide and p53(171-192) was studied using circular diachronic spectroscopy and fluorescence spectroscopy...
September 20, 2018: FEBS Letters
Maki Teramoto
This study reports on a marine bacterium that accumulates fatty alcohols (C14,16,18 ) at more than 1% (w/w) of the dry cell weight. This unique bacterium, designated as strain 1-4, is related to the genus Reinekea. A novel gene cluster for fatty alcohol synthesis, phsAB, is identified from strain 1-4. The phsA product shows significant homology to fatty acyl-CoA reductase (51% identity), whereas the phsB product shows very low homology to lipases. Interestingly, phsA alone causes Escherichia coli to accumulate fatty alcohols at 19% (w/w) of the dry cell weight...
September 17, 2018: FEBS Letters
Yangzhige He, Boya Zhang, Yang Li, Lihong Diao, Liang Lu, Jingwen Yao, Zhongyang Liu, Dong Li, Fuchu He
Embryonic stem cells (ESCs) are characterized by their dual capacity, self-renewal and pluripotency, which can be regulated by metabolism. A better understanding of ESC metabolism and regulatory mechanism is pivotal for research of development, ageing, and cancer treatment. However, a systematic and comprehensive delineation of human ESC metabolism is still absent. Here, we reconstructed the first genome-scale metabolic model (GEM) of hESCs. By GEM simulation and analyses, hESC global metabolic characteristics including essential metabolites and network motifs were identified...
September 17, 2018: FEBS Letters
Qi Hu, Tianshou Zhou
Biological experiments have verified that EIciRNAs (a class of circRNA) produced from pre-mRNA can regulate gene expression, but the effect of regulation remains unexplored. Here, we refine a mechanistic gene model from experimental facts, in which we assume pre-mRNA synthesizes EIciRNAs and mRNAs in a probabilistic manner, with the probability called the pathway strength, and the resulting EIciRNAs positively regulate the pre-mRNA synthesis. We show that there is a critical pathway strength such that the mRNA mean and the mRNA noise reach the highest and lowest levels, respectively...
September 17, 2018: FEBS Letters
Ming Yu, Hao Wang, Jianwei Liu, Huamin Qin, Shuai Liu, Qiu Yan
The receptive uterine endometrium specifically expresses certain glycosyltransferases, and the corresponding oligosaccharides play important roles in accepting the embryo. The sialyltransferase ST3Gal3 is the key enzyme responsible for sLeX oligosaccharide biosynthesis, but the expression and function of ST3Gal3 in the receptive endometrium is still elusive. Here, we found that human endometrial tissues at secretory phase express a 4-fold higher ST3Gal3 level relative to the tissues at proliferative phase. Meanwhile, ST3Gal3 downregulation or sLeX epitope blockage significantly impairs the receptive ability of human endometrial RL95-2 cells to trophoblastic cells in vitro and inhibits implantation in pregnant mice...
September 16, 2018: FEBS Letters
Shweta Varshney, Pamela Stanley
Notch signalling regulates a plethora of developmental processes and is also essential for the maintenance of tissue homeostasis in adults. Therefore, fine-tuning of Notch signalling strength needs to be tightly regulated. Of key importance for the regulation of Notch signaling are O-fucose, O-GlcNAc and O-glucose glycans attached to the extracellular domain of Notch receptors. The EGF repeats of the Notch receptor extracellular domain harbor consensus sites for addition of the different types of O-glycan to Ser or Thr, which takes place in the endoplasmic reticulum...
September 12, 2018: FEBS Letters
David Chakravorty, Yunqing Yu, Sarah M Assmann
The receptor-like kinase FERONIA (FER) pleiotropically affects plant reproduction, development, and stress tolerance. We recently showed that the FER ligand RALF1 promotes stomatal closure and inhibits stomatal opening in a G-protein-dependent manner. FER responses have been designated as kinase-dependent or kinase-independent, based largely on fer complementation assays employing a kinase-dead FERK565R. Our quantification of FERK565R-GFP transcript and FERK565R-GFP protein in fer complementation lines reveal that, even within individual complementation lines, different levels of FERK565R expression prevail...
September 12, 2018: FEBS Letters
Alexandra Primikyri, Nisar Sayyad, Giacomo Quilici, Eirinaios I Vrettos, Kyungeun Lim, Seung-Wook Chi, Giovanna Musco, Ioannis P Gerothanassis, Andreas G Tzakos
In-cell NMR spectroscopy has emerged as a powerful technique for monitoring biomolecular interactions at an atomic level inside intact cells. However, current methodologies are inadequate at charting intracellular interactions of non-labeled proteins and require their prior isotopic labeling. Herein, we describe for the first time the monitoring of the quercetin-alanine bioconjugate interaction with the non-labeled anti-apoptotic protein Bcl-2 inside living human cancer cells. STD and Tr-NOESY in-cell NMR methodologies were successfully applied in the investigation of the binding, which was further validated in vitro...
September 12, 2018: FEBS Letters
Pooja Yadav, Venuka Durani Goyal, Neeraj K Gaur, Ashwani Kumar, Sadashiv M Gokhale, Ravindra D Makde
Peptidase-E, a nonclassical serine peptidase, is specific for dipeptides with an N-terminal aspartate. This stringent substrate specificity remains largely unexplained. We report an aspartate-bound structure of peptidase-E at 1.83 Å resolution. In contrast to previous reports, the enzyme forms a dimer, and the active site is located at the dimer interface, well shielded from the solvent. Our findings further suggest that the stringent aspartate specificity of the enzyme is due to electrostatics and molecular complementarity in the active site...
September 8, 2018: FEBS Letters
Evelina Zagorskaitė, Elena Manakova, Giedrius Sasnauskas
Cytosine modifications expand the information content of genomic DNA in both eukaryotes and prokaryotes, providing means for epigenetic regulation and self versus nonself discrimination. For example, the methyl-directed restriction endonuclease, McrBC, recognizes and cuts invading bacteriophage DNA containing 5-methylcytosine (5mC), 5-hydroxymethylcytosine (5hmC), and N4-methylcytosine (4mC), leaving the unmodified host DNA intact. Here, we present cocrystal structures of McrB-N bound to DNA oligoduplexes containing 5hmC, 5-formylcytosine (5fC), and 4mC, and characterize the relative affinity of McrB-N to various cytosine variants...
September 8, 2018: FEBS Letters
Maria Martinez Molledo, Esben M Quistgaard, Christian Löw
Proton-dependent oligopeptide transporters (POTs) are important for the uptake of di-/tripeptides in many organisms and for drug transport in humans. The binding mode of dipeptides has been well described. However, it is still debated how tripeptides are recognized. Here, we show that tripeptides of the sequence Phe-Ala-Xxx bind with similar affinities as dipeptides to the POT transporter from Streptococcus thermophilus (PepTS t ). We furthermore determined a 2.3-Å structure of PepTS t in complex with Phe-Ala-Gln...
September 8, 2018: FEBS Letters
Rita Puglisi, Annalisa Pastore
Iron-sulfur cluster biogenesis is a complex process mediated by numerous proteins among which two chaperones, called HscB and HscA in bacteria. They are highly conserved up to eukaryotes and homologous to DnaJ and DnaK respectively but with specific differences. As compared to other chaperones, HscB and HscA have escaped attention and relatively little is known about their functions. After briefly introducing chaperones, we reviewed here the current structural and functional knowledge on these proteins and our understanding on their role in cluster formation...
September 8, 2018: FEBS Letters
Joanna Mackie, Himank Kumar, Stephen L Bearne
Glutamate racemases (GR) catalyze the racemization of d- and l-glutamate, and are targets for the development of antibiotics. We demonstrate that GR from the periodontal pathogen Fusobacterium nucleatum (FnGR) catalyzes the racemization of d-homocysteic acid (d-HCA), while l-HCA is a poor substrate. This enantioselectivity arises because l-HCA perturbs FnGR's monomer-dimer equilibrium towards inactive monomer. The inhibitory effect of l-HCA may be overcome by increasing the total FnGR concentration or by adding glutamate, but not by blocking access to the active site through site-directed mutagenesis, suggesting that l-HCA binds at an allosteric site...
September 8, 2018: FEBS Letters
Daisuke Matsuoka, Tomoyuki Furuya, Tetsushi Iwasaki, Takashi Nanmori
The MEKK1 kinase is a key regulator of stress signaling in Arabidopsis; however, little is known about the regulation of its kinase activity. Here, we found that recombinant MEKK1, expressed in both mammalian HEK293 cells and Escherichia coli, shows a mobility shift in SDS-PAGE, and immunoblotting detected phosphorylation of serine, threonine, and tyrosine residues. N-terminal deletions, site-directed mutagenesis, and protein phosphatase treatment revealed that the mobility shift results from autophosphorylation of the kinase domain...
September 7, 2018: FEBS Letters
Zhiyuan Liu, Yalan Cheng, Yi Luan, Wuling Zhong, Hejin Lai, Hui Wang, Huimin Yu, Yale Yang, Ning Feng, Feixiang Yuan, Rui Huang, Zhishui He, Fang Zhang, Menghong Yan, Hao Yin, Feifan Guo, Qiwei Zhai
Short-term tamoxifen treatment has effects on lipid and glucose metabolism in mice fed chow. However, its effects on metabolism in mice fed high-fat diet (HFD) and the underlying mechanisms are unclear. Here, we show that tamoxifen treatment for 5 days decreases fat mass for as long as 18 weeks in mice fed HFD. Tamoxifen alters mRNA levels of some genes involved in lipid metabolism in white adipose tissue and improves glucose and insulin tolerance as well as hepatic insulin signaling for 12-20 weeks. Proopiomelanocortin (POMC) neuron-specific deletion of nicotinamide mononucleotide adenylyltransferase 2 (Nmnat2) attenuates the effects of tamoxifen on glucose and insulin tolerance...
September 7, 2018: FEBS Letters
Monika Sinzel, Andreas Zeitler, Kai Stefan Dimmer
Mitochondria are organelles containing two membranes that are distinct in composition and function. A role of the mitochondrial outer membrane (MOM) is to mediate contact of the organelle with the rest of the cell. In yeast, the MOM contains about 40 different integral proteins. Recently, we described the MOM protein Mcp3, which can serve as a multi-copy suppressor of loss of ERMES complex that mediates mitochondria-ER contacts. To shed further light on the role of Mcp3 in the MOM, we analysed its physical interaction with other proteins...
September 7, 2018: FEBS Letters
Dola Sengupta, Vijay P S Kompella, Sandip Kar
In mammalian cells, the decision to maintain quiescence over proliferation commitment during G1 -S transition depends on more than one intertwined feedback interaction and is highly cell-type dependent. However, the precise role played by these individual feedback regulations in organizing such diverse proliferation dynamics is still poorly understood. Herein, we propose a predictive mathematical model of G1 -S transition in mammalian cells that reconciles distinct single-cell experimental observations in a cell-type specific manner...
September 7, 2018: FEBS Letters
Günter Schwarzmann
The unveiling of ganglioside metabolism and biological function in the last decades depended on the extensive study of inherited human disease, studies with cultured cells, and specifically designed mouse models. Nonetheless, only few of the accomplishments made so far would have been possible without the use of labeled gangliosides, such as their radiolabeled and/or fluorescent analogs, as well as other modified gangliosides bearing cross-linking, affinity, or paramagnetic groups. Over the years, chemists and biochemists have made tremendous progress toward developing labeled gangliosides for their application in biological systems...
September 6, 2018: FEBS Letters
David A Korasick, Tommi A White, Srinivas Chakravarthy, John J Tanner
Nicotinamide adenine dinucleotide (NAD) is the redox cofactor of many enzymes, including the vast aldehyde dehydrogenase (ALDH) superfamily. Although the function of NAD(H) in hydride transfer is established, its influence on protein structure is less understood. Herein, we show that NAD+ -binding promotes assembly of the ALDH7A1 tetramer. Multi-angle light scattering, small-angle X-ray scattering, and sedimentation velocity all show a pronounced shift of the dimer-tetramer equilibrium toward the tetramer when NAD+ is present...
September 5, 2018: FEBS Letters
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