Contributors: Nicolas Sarute, Susan Ross
... Data from to the manuscript "TRIM2, a novel member of the antiviral family, limits new world arenavirus entry"
Data for: Kinetic, physicochemical properties and effects of pesticides and heavy metals on brain acetylcholinesterase of bentonic fish Hoplosternum littorale: Perspectives of application in aquatic biomonitoring
Contributors: MARIA OLIVEIRA, Rafael Souto Azevedo, Kaline Catiely Campos Silva, Caio Assis, Mônica Lucia Adam, Valdir Luna Silva, Kelma Sirleide Souza, Marlyete Chagas Araujo, Maria Betania Melo Oliveira, Luciano Clemente Silva
... Highlights 1. Brain ChE from H. littorale was physicochemical and kinetically characterized; 2. Selective inhibitors showed AChE as the main ChE in H. littorale brain; 3. The enzyme was in vitro exposed to eleven pesticides and ten ions; 4. This study presents the first report on the inhibition of cerebral AChE in the Siluriformes group of fish by the pesticides, novaluron and pyriproxyfen; 5. The AChE from H. littorale was highly sensitive to dichlorvos at concentrations (IC20 - IC50) well below the maximum concentrations of this pesticide allowed by the current legislation; 6. Among the ions studied, mercury altered the enzymatic activity most significantly.
Contributors: Richard Zimmermann, Regine Stutz
... In mammalian cells, one-third of all polypeptides are transported into/across the ER-membrane via the Sec61-channel. While the Sec61-complex facilitates translocation of all polypeptides with amino-terminal signal peptides (sp) or transmembrane helices, the Sec61-associated TRAP-complex supports translocation of only a subset, i.e. in a substrate-specific manner. To characterize TRAP-dependent precursors, we combined siRNA-mediated TRAP depletion in human cells, label-free quantitative proteomics, and differential expression analysis. The results were validated by western blotting and quantitative RT-PCR as well as under conditions of over-production of TRAP-dependent precursors and their mutated variants in the presence or absence of MG132, a proteasome inhibitor. Sp analysis of TRAP-clients revealed above-average glycine-plus-proline content as the distinguishing feature. Thus, TRAP acts as an sp-receptor on the ER-membrane’s cytosolic face for precursor polypeptides with high glycine-plus-proline content in their sp and triggers substrate-specific (and regulated) opening of the Sec61-channel by its interaction with the ER-lumenal hinge of Sec61α. The work is about to be published under the title Proteomics reveals signal peptide features determining the client specificity in human TRAP-dependent ER protein import by Duy Nguyen, Regine Stutz, Stefan Schorr, Sven Lang, Stefan Pfeffer, Hudson H. Freeze, Friedrich Förster, Volkhard Helms1 Johanna Dudek & Richard Zimmermann Here we present the original western blot data plus additional SP and TMH analyses, which are presented in a pptx figure and a xlsx table, respectively . Additional physicochemical properties of TRAP clients with SP or TMH. In addition to the hydrophobicity score and glycine/proline (GP) content, we determined the ΔGapp values of SP sequences (a) and transmembrane helices (TMH) (b) with the ΔGapp predictor for TM helix insertion (http://dgpred.cbr.su.se) and plotted these values against the relative count (Density). Glycine and glycine plus proline content of human signal peptides. We used custom scripts to compute the glycine (G) and glycine plus proline (GP) content of human SP sequences from UniProtKB entries. GP content was calculated as the total fraction of glycine and proline in the respective sequence. Notably, 1382 SP of a total of 3513 have a GP content of > 15%, the proposed threshold for TRAP involvement and, therefore, potential regulation by phosphorylation and/or calcium binding by TRAP subunit α.
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Pacer is a mediator of mTORC1 and GSK3-TIP60 signaling in regulation of autophagosome maturation and lipid metabolism
Contributors: Xiawei Cheng, Sun Qiming
... Molecular Cell D-18-00349-Original images of Western blot and microscopy images
Contributors: Claudio De Virgilio, Riko Hatakeyama, Marie-Pierre Péli-Gulli, Zehan Hu, Malika Jaquenoud, Guillermo Miguel Garcia Osuna, Alessandro Sardu, Jörn Dengjel
... Online on December 6th, 2018 in : Molecular Cell Print: Molecular Cell 73, 1–14, January 17, 2019 This is the original data set that contains all of the unprocessed microscopy images, gels, and blots used in this manuscript.
Data for: Larval zebrafish model for studying the effects of valproic acid on neurodevelopment: an approach towards modelling autism
Contributors: Pushkar Kulkarni, Yogeeswari Perumal, Rita Rani, Raghavender Medishetti, Aarti Sevilimedu, Shubham Dwivedi
... Table S-1: Effect of different concentration of VPA on zebrafish embryos/larvae at various time point Figure S-2: Effect of different concentrations of VPA on zebrafish embryos at 24-hpf in comparison to control. Figure S-3: Schematic representation for protocols of behavioural assays. PowerPoint Presentation S-4: Principle of Behavioral Tests (see power point animation uploaded separately) Table S-5: Primers used in gene expression study Figure S-6: Systematic representation of social interaction test protocol Excel S-7: Behavior Raw Data (see excel sheet uploaded separately) Figure S-8: OFT Explanatory Data: A) The pattern of zebrafish larvae throughout 30 minutes interval; B) The comparative data of 30 minutes and 5 minutes Video S-9: Open Field Test video representation (see video uploaded separately). Figure S-10: Inattentive behavior: Graphical representation of response to aversive stimulus in control and VPA treated larvae in 30 minutes duration of acclimatization and aversive stimulus. Video S-11: Inattentive behavior test video representation (see video uploaded separately). Video S-12: Circling Behavior Test video representation (see video uploaded separately). Table S-13: Gene Homology: Homology of autism related proteins and DNA in human, zebrafish and rodents (https://www.ncbi.nlm.nih.gov/homologene/) Excel S-14: Gene Scoring in Relevance to Autism (see excel sheet uploaded separately). Word S-15: Selection of molecular markers: Video S-16: Social Interaction Test video representation (see video uploaded separately).
A study of Virus-induced changes in mRNA secondary structure uncover cis-regulatory elements that directly control gene expression. Mizrahi et al.
Contributors: Orel Mizrahi
... Unraveling cis-regulatory elements by mapping changes in mRNA structure for that reason, we measure the changes in mRNA structure using DMS-MaPseq libraries between uninfected and HCMV infected cells, and found dozens of regions in mRNAs that significantly change their structure, and have a direct role in gene expression regulation.
Raw, not cropped supporting Western blot files for: Mavrommati, I., ... Pagano, M., D'Angiolella, V.: β-TrCP- and Casein Kinase II-Mediated Degradation of Cyclin F Controls Timely Mitotic Progression. Cell Rep. (2018)
Contributors: Michele Pagano
... Raw, not cropped supporting Western blot files for: Mavrommati I, Faedda R, Galasso G, Li J, Burdova K, Fischer R, Kessler BM, Carrero ZI, Guardavaccaro D, Pagano M, D'Angiolella V. β-TrCP- and Casein Kinase II-Mediated Degradation of Cyclin F Controls Timely Mitotic Progression. Cell Rep. 2018 Sep 25;24(13):3404-3412. doi: 10.1016/j.celrep.2018.08.076. PMID: 30257202 PMCID: PMC6172692 DOI: 10.1016/j.celrep.2018.08.076
Contributors: Philipp Keller
... Guide's software and data repository- compact version