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A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
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2017 (English)In: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, no 1, article id 1541Article in journal (Refereed) Published
Abstract [en]

The NUDIX enzymes are involved in cellular metabolism and homeostasis, as well as mRNA processing. Although highly conserved throughout all organisms, their biological roles and biochemical redundancies remain largely unclear. To address this, we globally resolve their individual properties and inter-relationships. We purify 18 of the human NUDIX proteins and screen 52 substrates, providing a substrate redundancy map. Using crystal structures, we generate sequence alignment analyses revealing four major structural classes. To a certain extent, their substrate preference redundancies correlate with structural classes, thus linking structure and activity relationships. To elucidate interdependence among the NUDIX hydrolases, we pairwise deplete them generating an epistatic interaction map, evaluate cell cycle perturbations upon knockdown in normal and cancer cells, and analyse their protein and mRNA expression in normal and cancer tissues. Using a novel FUSION algorithm, we integrate all data creating a comprehensive NUDIX enzyme profile map, which will prove fundamental to understanding their biological functionality.

Place, publisher, year, edition, pages
Nature Publishing Group , 2017. Vol. 8, no 1, article id 1541
Keyword [en]
Nudix hydrolase, NUDT1 protein, NUDT10 protein, NUDT11 protein, NUDT12 protein, NUDT13 protein, NUDT14 protein, NUDT16 protein, NUDT17 protein, NUDT19 protein, NUDT20 protein, NUDT21 protein, NUDT22 protein, NUDT4 protein, NUDT5 protein, NUDT6 protein, NUDT7 protein, NUDT8 protein, unclassified drug, algorithm, biochemical composition, cancer, enzyme, enzyme activity, gene expression, homeostasis, metabolism, protein, A-549 cell line, Article, breast cancer, cancer cell line, cancer tissue, cell cycle, cell cycle regulation, cell survival, colorectal cancer, controlled study, DNA content, enzyme structure, functional genomics, gene interaction, gene silencing, human, human cell, human tissue, immunohistochemistry, melanoma, phylogenetic tree, protein expression, sequence alignment, tissue microarray, upregulation
National Category
Medical Biotechnology (with a focus on Cell Biology (including Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)
Identifiers
URN: urn:nbn:se:kth:diva-227131DOI: 10.1038/s41467-017-01642-wScopus ID: 2-s2.0-85034433549OAI: oai:DiVA.org:kth-227131DiVA, id: diva2:1203536
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QC 20180503

Available from: 2018-05-03 Created: 2018-05-03 Last updated: 2018-05-03Bibliographically approved

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Hallström, Björn M.Lundberg, Emma

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