uridine

Summary

Top Publications

  1. pmc MK2-induced tristetraprolin:14-3-3 complexes prevent stress granule association and ARE-mRNA decay
    Georg Stoecklin
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02115, USA
    EMBO J 23:1313-24. 2004
  2. pmc AU-rich elements and associated factors: are there unifying principles?
    Carine Barreau
    UMR 6061 CNRS Génétique et développement, IFR 140 Génétique Fonctionnelle Agronomie et Santé, Universite de Rennes 1, Faculte de Medecine, CS 34317, 35043 Rennes Cedex, France
    Nucleic Acids Res 33:7138-50. 2005
  3. pmc Eukaryotic wobble uridine modifications promote a functionally redundant decoding system
    Marcus J O Johansson
    Department of Molecular Biology, Umea University, 901 87 Umea, Sweden
    Mol Cell Biol 28:3301-12. 2008
  4. pmc Uridine insertion/deletion editing in trypanosomes: a playground for RNA-guided information transfer
    Ruslan Aphasizhev
    Department of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, USA
    Wiley Interdiscip Rev RNA 2:669-85. 2011
  5. pmc Disruption of uridine homeostasis links liver pyrimidine metabolism to lipid accumulation
    Thuc T Le
    Desert Research Institute, Las Vegas, NV 89135, USA
    J Lipid Res 54:1044-57. 2013
  6. pmc Mammalian ALKBH8 possesses tRNA methyltransferase activity required for the biogenesis of multiple wobble uridine modifications implicated in translational decoding
    Lene Songe-Møller
    Center for Molecular Biology and Neuroscience and Institute of Medical Microbiology, Oslo University Hospital, and Department of Molecular Biosciences, University of Oslo, Oslo, Norway
    Mol Cell Biol 30:1814-27. 2010
  7. ncbi ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA
    Erwin van den Born
    Department of Molecular Biosciences, University of Oslo, PO Box 1041 Blindern, Oslo 0316, Norway
    Nat Commun 2:172. 2011
  8. pmc Evolutionarily conserved proteins MnmE and GidA catalyze the formation of two methyluridine derivatives at tRNA wobble positions
    Ismaïl Moukadiri
    Laboratorio de Genetica Molecular, Centro de Investigacion Principe Felipe, 46012 Valencia, Spain
    Nucleic Acids Res 37:7177-93. 2009
  9. pmc Defects in tRNA modification associated with neurological and developmental dysfunctions in Caenorhabditis elegans elongator mutants
    Changchun Chen
    Department of Molecular Biology, Umea University, Umea, Sweden
    PLoS Genet 5:e1000561. 2009
  10. pmc The modified wobble nucleoside uridine-5-oxyacetic acid in tRNAPro(cmo5UGG) promotes reading of all four proline codons in vivo
    S Joakim Nasvall
    Department of Molecular Biology, Umea University, S 90 187 Umeå, Sweden
    RNA 10:1662-73. 2004

Detail Information

Publications294 found, 100 shown here

  1. pmc MK2-induced tristetraprolin:14-3-3 complexes prevent stress granule association and ARE-mRNA decay
    Georg Stoecklin
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02115, USA
    EMBO J 23:1313-24. 2004
    ..Our data reveal the mechanism by which the p38-MAPK/MK2 kinase cascade inhibits TTP-mediated degradation of ARE-containing transcripts and thereby contributes to lipopolysaccharide-induced TNFalpha expression...
  2. pmc AU-rich elements and associated factors: are there unifying principles?
    Carine Barreau
    UMR 6061 CNRS Génétique et développement, IFR 140 Génétique Fonctionnelle Agronomie et Santé, Universite de Rennes 1, Faculte de Medecine, CS 34317, 35043 Rennes Cedex, France
    Nucleic Acids Res 33:7138-50. 2005
    ..The potential relationship between mRNA stability and translation is also discussed. Finally, we present several hypotheses that could unify the published data and suggest avenues for future research...
  3. pmc Eukaryotic wobble uridine modifications promote a functionally redundant decoding system
    Marcus J O Johansson
    Department of Molecular Biology, Umea University, 901 87 Umea, Sweden
    Mol Cell Biol 28:3301-12. 2008
    ..Moreover, the observation that the mcm(5)U(34)- and some ncm(5)U(34)-containing tRNAs efficiently read G-ending codons challenges the notion that eukaryotes do not use U-G wobbling...
  4. pmc Uridine insertion/deletion editing in trypanosomes: a playground for RNA-guided information transfer
    Ruslan Aphasizhev
    Department of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, USA
    Wiley Interdiscip Rev RNA 2:669-85. 2011
    ..In this article, we focus on uridine insertion/deletion mRNA editing found exclusively in mitochondria of kinetoplastid protists...
  5. pmc Disruption of uridine homeostasis links liver pyrimidine metabolism to lipid accumulation
    Thuc T Le
    Desert Research Institute, Las Vegas, NV 89135, USA
    J Lipid Res 54:1044-57. 2013
    We report in this study an intrinsic link between pyrimidine metabolism and liver lipid accumulation utilizing a uridine phosphorylase 1 transgenic mouse model UPase1-TG...
  6. pmc Mammalian ALKBH8 possesses tRNA methyltransferase activity required for the biogenesis of multiple wobble uridine modifications implicated in translational decoding
    Lene Songe-Møller
    Center for Molecular Biology and Neuroscience and Institute of Medical Microbiology, Oslo University Hospital, and Department of Molecular Biosciences, University of Oslo, Oslo, Norway
    Mol Cell Biol 30:1814-27. 2010
    ..Despite the complete loss of all of these uridine modifications, Alkbh8-/- mice appear normal...
  7. ncbi ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA
    Erwin van den Born
    Department of Molecular Biosciences, University of Oslo, PO Box 1041 Blindern, Oslo 0316, Norway
    Nat Commun 2:172. 2011
    ..These findings expand the function of the ALKBH oxygenases beyond nucleic acid repair and increase the current knowledge on mammalian wobble uridine modifications and their biogenesis.
  8. pmc Evolutionarily conserved proteins MnmE and GidA catalyze the formation of two methyluridine derivatives at tRNA wobble positions
    Ismaïl Moukadiri
    Laboratorio de Genetica Molecular, Centro de Investigacion Principe Felipe, 46012 Valencia, Spain
    Nucleic Acids Res 37:7177-93. 2009
    The wobble uridine of certain bacterial and mitochondrial tRNAs is modified, at position 5, through an unknown reaction pathway that utilizes the evolutionarily conserved MnmE and GidA proteins...
  9. pmc Defects in tRNA modification associated with neurological and developmental dysfunctions in Caenorhabditis elegans elongator mutants
    Changchun Chen
    Department of Molecular Biology, Umea University, Umea, Sweden
    PLoS Genet 5:e1000561. 2009
    ..elpc-1; tuc-1 and elpc-3; tuc-1 double mutants display developmental defects. Our results suggest that, by its effect on tRNA modification, Elongator promotes both neural function and development...
  10. pmc The modified wobble nucleoside uridine-5-oxyacetic acid in tRNAPro(cmo5UGG) promotes reading of all four proline codons in vivo
    S Joakim Nasvall
    Department of Molecular Biology, Umea University, S 90 187 Umeå, Sweden
    RNA 10:1662-73. 2004
    ..serovar Typhimurium five of the eight family codon boxes are decoded by a tRNA having the modified nucleoside uridine-5-oxyacetic acid (cmo5U) as a wobble nucleoside present in position 34 of the tRNA...
  11. pmc Elongator function in tRNA wobble uridine modification is conserved between yeast and plants
    Constance Mehlgarten
    Institut fur Biologie, Genetik, Martin Luther Universitat Halle Wittenberg, Weinbergweg 10, D 06120 Halle Saale, Germany
    Mol Microbiol 76:1082-94. 2010
    ..Here we show that Arabidopsis mutants lacking the Elongator subunit AtELP3/ELO3 have a defect in tRNA wobble uridine modification...
  12. ncbi Abnormalities in uridine homeostatic regulation and pyrimidine nucleotide metabolism as a consequence of the deletion of the uridine phosphorylase gene
    Deliang Cao
    Cancer Institute, Southern Illinois University School of Medicine, Springfield, Illinois 62702, USA
    J Biol Chem 280:21169-75. 2005
    We report in the present study the critical role of uridine phosphorylase (UPase) in uridine homeostatic regulation and pyrimidine nucleotide metabolism, employing newly developed UPase-/- mice...
  13. ncbi Uridine supplementation antagonizes zalcitabine-induced microvesicular steatohepatitis in mice
    Dirk Lebrecht
    Department of Rheumatology and Clinical Immunology, Medizinische Universitatsklinik, Freiburg, Germany
    Hepatology 45:72-9. 2007
    ..b>Uridine antagonizes this effect in vitro...
  14. ncbi Uridine enhances neurite outgrowth in nerve growth factor-differentiated PC12 [corrected]
    A M Pooler
    Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, 45 Carleton Street, Cambridge, MA 02139, USA
    Neuroscience 134:207-14. 2005
    ..b>Uridine, a normal plasma constituent, can be converted to cytidine triphosphate in PC12 [corrected] cells and intact ..
  15. pmc The handling of the mechanistic probe 5-fluorouridine by the pseudouridine synthase TruA and its consistency with the handling of the same probe by the pseudouridine synthases TruB and RluA
    Marguerite K McDonald
    Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA
    Biochemistry 50:426-36. 2011
    ..via a mechanism involving a Michael addition by an active site aspartic acid residue to the pyrimidine ring of uridine or F(5)U...
  16. pmc The invariant uridine of stop codons contacts the conserved NIKSR loop of human eRF1 in the ribosome
    Laurent Chavatte
    Institut Jacques Monod, UMR 7592 CNRS Universités Paris 7 Paris 6, 2 place Jussieu, F 75251 Paris Cedex 05, France
    EMBO J 21:5302-11. 2002
    ..Thus, the N and M domains mimic the tRNA anticodon and acceptor arms, respectively...
  17. ncbi Trypanosoma brucei: a survey of pyrimidine transport activities
    Simon Gudin
    Division of Infection and Immunity, Institute of Biomedical and Life Sciences, University of Glasgow, Biomedical Research Center, Glasgow G12 8TA, UK
    Exp Parasitol 114:118-25. 2006
    ..We also confirmed the presence of the previously reported U1 uracil transporter and found it capable of mediating uridine uptake as well, with a K(m) of 33+/-5 microM. A higher-affinity U2 uridine transporter (K(m)=4.1+/-2...
  18. pmc Uridylation of miRNAs by hen1 suppressor1 in Arabidopsis
    Guodong Ren
    Center for Plant Science Innovation and School of Biological Sciences, University of Nebraska, Lincoln, NE 68588 0660, USA
    Curr Biol 22:695-700. 2012
    ..HESO1 encodes a terminal nucleotidyl transferase that prefers to add untemplated uridine to the 3' end of RNA, which is completely abolished by 2'-O-methylation...
  19. pmc The Arabidopsis nucleotidyl transferase HESO1 uridylates unmethylated small RNAs to trigger their degradation
    Yuanyuan Zhao
    Department of Botany and Plant Sciences, Center for Plant Biology, Institute of Integrative Genome Biology, University of California, Riverside, Riverside, CA 92521, USA
    Curr Biol 22:689-94. 2012
    ..small RNAs from 3'-to-5' truncation and 3' uridylation, the addition of nontemplated nucleotides, predominantly uridine [2, 7, 8]...
  20. ncbi Accurate translation of the genetic code depends on tRNA modified nucleosides
    Connie Yarian
    Department of Biochemistry, North Carolina State University, Raleigh, North Carolina 27695 7622, USA
    J Biol Chem 277:16391-5. 2002
    ..We conclude that modified nucleosides evolved to modulate an anticodon domain structure necessary for many tRNA species to accurately translate the genetic code...
  21. ncbi Elevated levels of two tRNA species bypass the requirement for elongator complex in transcription and exocytosis
    Anders Esberg
    Department of Molecular Biology, Umea University, 901 87 Umea, Sweden
    Mol Cell 24:139-48. 2006
    ..Our results indicate that the physiologically relevant function of the evolutionary-conserved Elongator complex is in formation of modified nucleosides in tRNAs...
  22. pmc Attenuated virulence of uridine-uracil auxotrophs of Aspergillus fumigatus
    C d'Enfert
    Laboratoire des Aspergillus and Unité d Histopathologie, Institut Pasteur, Paris, France
    Infect Immun 64:4401-5. 1996
    ..of a mutation in the pyrG gene encoding orotidine-5'-phosphate decarboxylase (and therefore auxotrophic for uridine or uracil) were evaluated in a murine model of invasive aspergillosis...
  23. pmc Decapping is preceded by 3' uridylation in a novel pathway of bulk mRNA turnover
    Olivia S Rissland
    Sir William Dunn School of Pathology, University of Oxford, UK
    Nat Struct Mol Biol 16:616-23. 2009
    ..As human cells contain Cid1 orthologs, uridylation may form the basis of a widespread, conserved mechanism of mRNA decay...
  24. pmc Plastid uridine salvage activity is required for photoassimilate allocation and partitioning in Arabidopsis
    Mingjie Chen
    Division of Biochemistry and Interdisciplinary Plant Group, Christopher S Bond Life Sciences Center, University of Missouri, Columbia, Missouri 65211, USA
    Plant Cell 23:2991-3006. 2011
    Nucleotides are synthesized from de novo and salvage pathways. To characterize the uridine salvage pathway, two genes, UKL1 and UKL2, that tentatively encode uridine kinase (UK) and uracil phosphoribosyltransferase (UPRT) bifunctional ..
  25. pmc Crystal structure determination and site-directed mutagenesis of the Pyrococcus abyssi aCBF5-aNOP10 complex reveal crucial roles of the C-terminal domains of both proteins in H/ACA sRNP activity
    Xavier Manival
    Laboratoire de Maturation des ARN et Enzymologie Moleculaire, UMR 7567 UHP CNRS, Université des Sciences et Techniques Henri Poincaré, Nancy I, 54506 Vandoeuvre les Nancy Cedex, France
    Nucleic Acids Res 34:826-39. 2006
    In archaeal rRNAs, the isomerization of uridine into pseudouridine (Psi) is achieved by the H/ACA sRNPs and the minimal set of proteins required for RNA:Psi-synthase activity is the aCBF5-aNOP10 protein pair...
  26. pmc RNA-methyltransferase TrmA is a dual-specific enzyme responsible for C5-methylation of uridine in both tmRNA and tRNA
    Ehsan Ranaei-Siadat
    CNRS UMR 8015, Laboratoire de Cristallographie et RMN Biologiques, Faculte de Pharmacie, Paris, France
    RNA Biol 10:572-8. 2013
    ..The evidence comes from the lack of m (5)U in purified tmRNA or TLD variants recovered from an Escherichia coli mutant strain deleted of the trmA gene. Detection of m (5)U in RNA was performed by NMR analysis...
  27. pmc Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines
    Albert Weixlbaumer
    Medical Research Council Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, UK
    Nat Struct Mol Biol 14:498-502. 2007
    One of the most prevalent base modifications involved in decoding is uridine 5-oxyacetic acid at the wobble position of tRNA...
  28. ncbi Molecular identification and characterization of novel human and mouse concentrative Na+-nucleoside cotransporter proteins (hCNT3 and mCNT3) broadly selective for purine and pyrimidine nucleosides (system cib)
    M W Ritzel
    Membrane Transport Research Group, Departments of Physiology, Oncology, and Biological Sciences, University of Alberta, Edmonton, Alberta T6G 2H7, Canada
    J Biol Chem 276:2914-27. 2001
    ..hCNT3 was electrogenic, and a sigmoidal dependence of uridine influx on Na(+) concentration indicated a Na(+):uridine coupling ratio of at least 2:1 for both hCNT3 and mCNT3 (..
  29. ncbi Oral uridine pro-drug PN401 decreases neurodegeneration, behavioral impairment, weight loss and mortality in the 3-nitropropionic acid mitochondrial toxin model of Huntington's disease
    Joel A Saydoff
    Neuroscience Research, Wellstat Therapeutics Corporation, 930 Clopper Road, Gaithersburg, MD 20878, USA
    Brain Res 994:44-54. 2003
    ..De novo biosynthesis of uridine nucleotides is directly coupled to the respiratory chain...
  30. ncbi Characterization of the 23 S ribosomal RNA m5U1939 methyltransferase from Escherichia coli
    Sanjay Agarwalla
    Department of Biochemistry, University of California at San Francisco, San Francisco, California 94143 0448, USA
    J Biol Chem 277:8835-40. 2002
    ..We propose to name this gene rumA and accordingly name the protein product as RumA for RNA uridine methyltransferase.
  31. ncbi Combined uridine and choline administration improves cognitive deficits in spontaneously hypertensive rats
    N M W J De Bruin
    Numico Research B V, Department of Condition and Disease Specific Research Neuroendocrinology section, Bosrandweg 20, 6704 PH Wageningen, PO Box 7005, 6700 CA Wageningen, The Netherlands
    Neurobiol Learn Mem 80:63-79. 2003
    ..Additionally, effects of chronic uridine and choline administration were studied. Methods...
  32. ncbi Molecular cloning, functional expression and chromosomal localization of a cDNA encoding a human Na+/nucleoside cotransporter (hCNT2) selective for purine nucleosides and uridine
    M W Ritzel
    Department of Physiology, University of Alberta, Edmonton, Canada
    Mol Membr Biol 15:203-11. 1998
    Two Na(+)-dependent nucleoside transporters implicated in adenosine and uridine transport in mammalian cells are distinguished functionally on the basis of substrate specificity: CNT1 is selective for pyrimidine nucleosides but also ..
  33. ncbi Effect of oral CDP-choline on plasma choline and uridine levels in humans
    R J Wurtman
    Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Biochem Pharmacol 60:989-92. 2000
    ..m.) and 1-12 hr thereafter, were assayed for choline, cytidine, and uridine. Fasting terminated at noon with consumption of a light lunch that contained about 100 mg choline...
  34. ncbi A single uridine modification at the wobble position of an artificial tRNA enhances wobbling in an Escherichia coli cell-free translation system
    K Takai
    Department of Industrial Chemistry, Chiba Institute of Technology, Narashino, Japan
    FEBS Lett 447:1-4. 1999
    ..Thus, the single modification of U to 5-methoxyuridine can enhance the wobble readings...
  35. pmc Not all pseudouridine synthases are potently inhibited by RNA containing 5-fluorouridine
    Christopher J Spedaliere
    Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, USA
    RNA 10:192-9. 2004
    ..RNA transcripts containing 5-fluorouridine in place of uridine have, therefore, been added to reconstituted systems in order to investigate the importance of particular ..
  36. ncbi A crucial role of uridine/cytidine kinase 2 in antitumor activity of 3'-ethynyl nucleosides
    Daigo Murata
    Department of Experimental Therapeutics, Cancer Research Institute, Kanazawa University, 13 1 Takaramachi, Kanazawa 920 0934, Japan
    Drug Metab Dispos 32:1178-82. 2004
    ..1-(3-C-ethynyl-beta-D-ribopentofuranosyl)cytosine (ECyd) and 1-(3-C-ethynyl-beta-D-ribopentofuranosyl)uridine (EUrd), are potent inhibitors of RNA polymerases and show excellent antitumor activity against various human ..
  37. ncbi Immunostimulatory potential of silencing RNAs can be mediated by a non-uridine-rich toll-like receptor 7 motif
    Marion Jurk
    Pfizer Oligonucleotide Therapeutics Unit, Coley Pharmaceutical GmbH, Merowingerplatz 1a, Dusseldorf, Germany
    Nucleic Acid Ther 21:201-14. 2011
    ..production in human peripheral blood immune cells, but not all of them did contain previously described guanosine/uridine TLR7 or adenosine/uridine TLR8 motifs...
  38. pmc Structure of the core editing complex (L-complex) involved in uridine insertion/deletion RNA editing in trypanosomatid mitochondria
    Feng Li
    Department of Microbiology, Immunology and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA 90095, USA
    Proc Natl Acad Sci U S A 106:12306-10. 2009
    b>Uridine insertion/deletion RNA editing is a unique form of posttranscriptional RNA processing that occurs in mitochondria of kinetoplastid protists...
  39. ncbi Synthesis and properties of triplex-forming oligonucleotides containing 2'-O-(2-methoxyethyl)-5-(3-aminoprop-1-ynyl)-uridine
    Chenguang Lou
    School of Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK
    Bioorg Med Chem 18:6389-97. 2010
    2'-O-(2-Methoxyethyl)-5-(3-aminoprop-1-ynyl)-uridine phosphoramidite (MEPU) has been synthesized from d-ribose and 5-iodouracil and incorporated into triplex-forming oligonucleotides (TFOs) by automated solid-phase oligonucleotide ..
  40. pmc Identification of Hepta- and Octo-Uridine stretches as sole signals for programmed +1 and -1 ribosomal frameshifting during translation of SARS-CoV ORF 3a variants
    Xiaoxing Wang
    Department of Biological Sciences, National University of Singapore, Singapore 117543
    Nucleic Acids Res 34:1250-60. 2006
    ..In this study, we report the identification of hepta- and octo-uridine stretches as sole signals for programmed +1 and -1 ribosomal frameshifting during translation of severe acute ..
  41. ncbi Small molecule inhibitors of mucin-type O-linked glycosylation from a uridine-based library
    Howard C Hang
    Department of Chemistry, University of California, Berkeley, Berkeley, CA 94720, USA
    Chem Biol 11:337-45. 2004
    ..In order to develop new tools for studying mucin-type O-linked glycosylation, we screened a 1338 member uridine-based library to identify small molecule inhibitors of ppGalNAcTs...
  42. ncbi Deficit of uridine diphosphate galactose in galactosaemia
    W G Ng
    Department of Pediatrics, University of Southern California School of Medicine, Los Angeles
    J Inherit Metab Dis 12:257-66. 1989
    The levels of uridine diphosphate galactose (UDPGal) and uridine diphosphate glucose (UDPGlc) have been determined in liver autopsy samples, erythrocytes and cultured skin fibroblasts from galactosaemic patients and compared to non-..
  43. ncbi The binding of 3'-N-piperidine-4-carboxyl-3'-deoxy-ara-uridine to ribonuclease A in the crystal
    Demetres D Leonidas
    Institute of Organic and Pharmaceutical Chemistry, The National Hellenic Research Foundation, 48 Vas Constantinou Avenue, 11635 Athens, Greece
    Bioorg Med Chem 14:6055-64. 2006
    The binding of a moderate inhibitor, 3'-N-piperidine-4-carboxyl-3'-deoxy-ara-uridine, to ribonuclease A has been studied by X-ray crystallography at 1.7A resolution...
  44. ncbi The c-Yes 3'-UTR contains adenine/uridine-rich elements that bind AUF1 and HuR involved in mRNA decay in breast cancer cells
    Stephanie Sommer
    Breast Center, Baylor College of Medicine and The Methodist Hospital, Houston, TX 77030, USA
    J Steroid Biochem Mol Biol 97:219-29. 2005
    ..This down-regulatory effect maps to three adenine/uridine-rich elements (AREs) that bind to cellular HuR and AUF1 (hnRNP D), two ARE-binding proteins (ARE-BPs) implicated ..
  45. ncbi tRNAGlu wobble uridine methylation by Trm9 identifies Elongator's key role for zymocin-induced cell death in yeast
    Daniel Jablonowski
    Biologicum, Institut fur Genetik, Martin Luther Universitat Halle Wittenberg, Weinbergweg 10, D 06120 Halle, Saale, Germany
    Mol Microbiol 59:677-88. 2006
    ..In line with the latter, trm9Delta cells lacking a tRNA methylase specific for wobble uridine (U(34)) residues survive zymocin and in excess, the Trm9 substrate tRNA(Glu) copies zymocin protection of ..
  46. pmc U bodies are cytoplasmic structures that contain uridine-rich small nuclear ribonucleoproteins and associate with P bodies
    Ji Long Liu
    Department of Embryology, Carnegie Institution of Washington, 3520 San Martin Drive, Baltimore, MD 21218, USA
    Proc Natl Acad Sci U S A 104:11655-9. 2007
    b>Uridine-rich small nuclear ribonucleoproteins (U snRNPs) are involved in key steps of pre-mRNA processing in the nucleus of eukaryotic cells...
  47. pmc Uridylation of mature miRNAs and siRNAs by the MUT68 nucleotidyltransferase promotes their degradation in Chlamydomonas
    Fadia Ibrahim
    School of Biological Sciences, University of Nebraska, Lincoln, NE 68588, USA
    Proc Natl Acad Sci U S A 107:3906-11. 2010
    ..We propose that MUT68 and RRP6 cooperate in the degradation of mature miRNAs and siRNAs, as a quality control mechanism to eliminate dysfunctional or damaged small RNA molecules...
  48. pmc Identifying the methyltransferases for m(5)U747 and m(5)U1939 in 23S rRNA using MALDI mass spectrometry
    Christian Toft Madsen
    Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, DK 5230 Odense M, Denmark
    Nucleic Acids Res 31:4738-46. 2003
    ..coli m(5)U RNA methyltransferases are identified, and a more appropriate designation for YbjF would be RumB (RNA uridine methyltransferases B), in line with the recent nomenclature change for YgcA (now RumA).
  49. ncbi Synaptic proteins and phospholipids are increased in gerbil brain by administering uridine plus docosahexaenoic acid orally
    Richard J Wurtman
    Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, 43 Vassar Street, 46 5023B MIT, Cambridge, MA 02139, USA
    Brain Res 1088:83-92. 2006
    The synthesis of brain phosphatidylcholine may utilize three circulating precursors: choline; a pyrimidine (e.g., uridine, converted via UTP to brain CTP); and a PUFA (e.g...
  50. ncbi Phosphorylation of uridine and cytidine nucleoside analogs by two human uridine-cytidine kinases
    A R Van Rompay
    Division of Clinical Virology, Karolinska Institute, Huddinge University Hospital, Stockholm, Sweden
    Mol Pharmacol 59:1181-6. 2001
    b>Uridine-cytidine kinases (UCK) have important roles for the phosphorylation of nucleoside analogs that are being investigated for possible use in chemotherapy of cancer. We have cloned the cDNA of two human UCKs...
  51. pmc Architecture and assembly of mammalian H/ACA small nucleolar and telomerase ribonucleoproteins
    Chen Wang
    Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, NY 10461, USA
    EMBO J 23:1857-67. 2004
    ..Nonetheless, functional H/ACA snoRNPs assembled in cytosolic extracts are stable and do not exchange their RNA components, suggesting that new particle formation requires de novo synthesis...
  52. pmc An early step in wobble uridine tRNA modification requires the Elongator complex
    Bo Huang
    Department of Molecular Biology, Umea University, 901 87 Umea, Sweden
    RNA 11:424-36. 2005
    ..Accordingly, a deletion of any ELP1-ELP6 or KTI11-KTI13 gene prevents an ochre suppressor tRNA that normally contains mcm5U from reading ochre stop codons...
  53. ncbi CDE-1 affects chromosome segregation through uridylation of CSR-1-bound siRNAs
    Josien C Van Wolfswinkel
    Hubrecht Institute KNAW and University Medical Centre Utrecht, Uppsalalaan 8, Utrecht, The Netherlands
    Cell 139:135-48. 2009
    ..The conserved nature of CDE-1 suggests that similar sorting mechanisms may operate in other animals, including mammals...
  54. pmc Uridine-ribohydrolase is a key regulator in the uridine degradation pathway of Arabidopsis
    Benjamin Jung
    Abteilung Pflanzenphysiologie, Fachbereich Biologie, Technische Universitat Kaiserslautern, D 67663 Kaiserslautern, Germany
    Plant Cell 21:876-91. 2009
    ..Here, we describe the cloning of such an enzyme from Arabidopsis thaliana, Uridine-Ribohydrolase 1 (URH1) and the characterization by complementation of a yeast mutant...
  55. pmc Identification of a novel gene encoding a flavin-dependent tRNA:m5U methyltransferase in bacteria--evolutionary implications
    Jaunius Urbonavicius
    CNRS, Enzymology and Structural Biochemistry Laboratory 1 avenue de la Terrasse, F 91198, Gif sur Yvette, France
    Nucleic Acids Res 33:3955-64. 2005
    ....
  56. ncbi Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs
    P Ganot
    Laboratoire de Biologie Moléculaire du CNRS, Universite Paul Sabatier, Toulouse, France
    Cell 89:799-809. 1997
    ..These results define a novel function for snoRNAs and further reinforce the idea that base pairing is the most common way to obtain specific substrate-"enzyme" interactions during rRNA maturation...
  57. ncbi Mutagenesis of the modified bases, m(5)U1939 and psi2504, in Escherichia coli 23S rRNA
    Clive Persaud
    School of Biological Sciences, University of Missouri Kansas City, 5007 Rockhill Road, Kansas City, MO 64110, USA
    Biochem Biophys Res Commun 392:223-7. 2010
    ..The results link these sites of post-transcriptional modification with the ribosome's response to antibiotics and the control of translational fidelity...
  58. pmc The products of 5-fluorouridine by the action of the pseudouridine synthase TruB disfavor one mechanism and suggest another
    Edward J Miracco
    Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, USA
    J Am Chem Soc 133:11826-9. 2011
    ..proposed mechanism involving an acylal intermediate operates but with an added reaction manifold for 5-fluorouridine versus uridine. The arabino product strongly disfavors a mechanism involving a Michael addition to the pyrimidine ring.
  59. ncbi RNA editing: cytidine to uridine conversion in apolipoprotein B mRNA
    A Chester
    MRC Molecular Medicine, Clinical Science Centre, Imperial College School of Medicine, Hammersmith Hospital, London, UK
    Biochim Biophys Acta 1494:1-13. 2000
    ..This knowledge is very important in understanding the structure and function of these related proteins and their role in biology...
  60. pmc Human AlkB homolog ABH8 Is a tRNA methyltransferase required for wobble uridine modification and DNA damage survival
    Dragony Fu
    Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02138, USA
    Mol Cell Biol 30:2449-59. 2010
    ..Here, we show that human AlkB homolog 8 (ABH8) catalyzes tRNA methylation to generate 5-methylcarboxymethyl uridine (mcm(5)U) at the wobble position of certain tRNAs, a critical anticodon loop modification linked to DNA damage ..
  61. pmc Restorative effects of uridine plus docosahexaenoic acid in a rat model of Parkinson's disease
    Mehmet Cansev
    Massachusetts Institute of Technology, Department of Brain and Cognitive Sciences, Cambridge, MA 02139, USA
    Neurosci Res 62:206-9. 2008
    Administering uridine-5'-monophosphate (UMP) and docosahexaenoic acid (DHA) increases synaptic membranes (as characterized by pre- and post-synaptic proteins) and dendritic spines in rodents...
  62. ncbi Crystal structure of an RNA duplex r(gugucgcac)(2) with uridine bulges
    Y Xiong
    Department of Chemistry, The Ohio State University Biological Macromolecular Structure Center, 012 Rightmire Hall, 1060 Carmack Rd, Columbus, OH 43210, USA
    J Mol Biol 313:573-82. 2001
    The crystal structure of a nonamer RNA duplex with a uridine bulge in each strand, r(gugucgcac)(2), was determined at 1.4 A resolution...
  63. ncbi Leflunomide-mediated suppression of antiviral antibody and Tcell responses: differential restoration by uridine
    D D Pinschewer
    Institute of Experimental Immunology, Department of Pathology, University Hospital Zurich, Switzerland
    Transplantation 72:712-9. 2001
    ..b>Uridine substitution experiments were performed to differentiate between the above mentioned two mechanisms of action on ..
  64. ncbi Purification and characterization of RihC, a xanthosine-inosine-uridine-adenosine-preferring hydrolase from Salmonella enterica serovar Typhimurium
    Michael Riis Hansen
    Department of Biological Chemistry, Institute of Molecular Biology, University of Copenhagen, Sølvgade 83 H, 1307 Copenhagen K, Denmark
    Biochim Biophys Acta 1723:55-62. 2005
    ..homotetrameric enzyme with a molecular weight of 135 kDa that can hydrolyze xanthosine, inosine, adenosine and uridine with similar catalytic efficiency (k(cat)/Km=1 to 4 x 10(4) M(-1)s(-1))...
  65. ncbi Effect of inosine on the plasma concentration of uridine and purine bases
    Tetsuya Yamamoto
    Third Department of Internal Medicine, Hyogo College of Medicine, Nishinomiya, Hyogo, Japan
    Metabolism 51:438-42. 2002
    To examine whether inosine increases the plasma concentration of uridine, 20 mg/kg body weight of inosine was orally administered to 5 healthy subjects. The plasma concentration of uridine was increased by 1.25-fold (P <...
  66. ncbi Insulin resistance induced by maximal exercise correlates with a post-exercise increase in uridine concentration in the blood of healthy young men
    W Dudzinska
    Department of Physiology, Faculty of Biology, University of Szczecin, Szczecin, Poland
    Physiol Res 62:163-70. 2013
    b>Uridine is postulated to participate in the development of insulin resistance...
  67. pmc Mechanistic investigations of the pseudouridine synthase RluA using RNA containing 5-fluorouridine
    Christopher S Hamilton
    Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, USA
    Biochemistry 45:12029-38. 2006
    The pseuoduridine synthases (psi synthases) isomerize uridine (U) to pseudouridine (psi) in RNA, and they fall into five families that share very limited sequence similarity but have the same overall fold and active-site architecture, ..
  68. pmc Hydrogen bond formation between the naturally modified nucleobase and phosphate backbone
    Jia Sheng
    Department of Chemistry, Georgia State University, Atlanta, GA 30303, USA
    Nucleic Acids Res 40:8111-8. 2012
    ..Our finding suggests a general interaction between the nucleobase and backbone and reveals a plausible function of the tRNA 5-O-CH(3) modification, which might potentially rigidify the local conformation and facilitates translation...
  69. ncbi Uridine binding and transportability determinants of human concentrative nucleoside transporters
    Jing Zhang
    Department of Oncology, University of Alberta, Cross Cancer Institute, 11540 University Ave, Edmonton, Alberta, Canada T6H 1Z2
    Mol Pharmacol 68:830-9. 2005
    ..system used previously for hCNT1 and hCNT3 was improved and used to characterize determinants for interaction of uridine (Urd) with hCNT2...
  70. ncbi The editosome for cytidine to uridine mRNA editing has a native complexity of 27S: identification of intracellular domains containing active and inactive editing factors
    Mark P Sowden
    Department of Biochemistry and Biophysics, University of Rochester School of Medicine and Dentistry, Rochester, New York 14642, USA
    J Cell Sci 115:1027-39. 2002
    Apolipoprotein B mRNA cytidine to uridine editing requires the assembly of a multiprotein editosome comprised minimally of the catalytic subunit, apolipoprotein B mRNA editing catalytic subunit 1 (APOBEC-1), and an RNA-binding protein, ..
  71. ncbi Posttreatment with uridine and melatonin following traumatic brain injury reduces edema in various brain regions in rats
    Shruti V Kabadi
    Department of Pharmaceutical Sciences, Massachusetts College of Pharmacy and Health Sciences, Boston, Massachusetts 02115, USA
    Ann N Y Acad Sci 1199:105-13. 2010
    ..We investigated the effect of posttreatment with uridine and melatonin, separate and in combination, on edema in various brain regions following TBI via lateral fluid ..
  72. ncbi Biochemistry of uridine in plasma
    Tetsuya Yamamoto
    Division of Endocrinology and Metabolism, Department of Internal Medicine, Hyogo College of Medicine, Nishinomiya, Japan
    Clin Chim Acta 412:1712-24. 2011
    b>Uridine is a pyrimidine nucleoside that plays a crucial role in synthesis of RNA, glycogen, and biomembrane...
  73. ncbi Binding of neuronal ELAV-like proteins to the uridine-rich sequence in the 3'-untranslated region of tumor necrosis factor-alpha messenger RNA
    K Sakai
    Department of Neurology, Kanazawa Medical University, Ishikawa, Japan
    FEBS Lett 446:157-62. 1999
    ..The protein binds to the uridine stretch in AUUUA pentanucleotides inside the ARE in the 3'-UTR of TNF-alpha mRNA...
  74. ncbi Auxotrophy for uridine increases the sensitivity of Aspergillus niger to weak-acid preservatives
    Petter Melin
    School of Biology, University of Nottingham, University Park, Nottingham, UK
    Microbiology 154:1251-7. 2008
    ..b>Uridine-requiring strains of Aspergillus niger were shown to be more sensitive to weak acids (including sorbic, acetic ..
  75. ncbi Relationship between plasma uridine and insulin resistance in patients with non-insulin-dependent diabetes mellitus
    Tetsuya Yamamoto
    Division of Endocrinology and Metabolism, Department of Internal Medicine, Hyogo College of Medicine, Japan
    Nucleosides Nucleotides Nucleic Acids 29:504-8. 2010
    It has been demonstrated that uridine infusion induces insulin resistance in rats...
  76. ncbi Cell death induced by uridine 5'-triphosphate (UTP) in contrast to adenosine 5'-triphosphate (ATP) in human epidermoid carcinoma cells (A-431)
    Thomas Völkl
    Institute of Biochemistry of the Medical Faculty, Friedrich Alexander University of Erlangen Nuremberg, Germany
    Cell Physiol Biochem 22:441-54. 2008
    ..Recent clinical trials suggest a potential role of ATP in cancer treatment. The aim of our study was to analyze the mechanisms of UTP in comparison to ATP-mediated cell death in an established cell line model (A-431)...
  77. pmc Functional and structural impact of target uridine substitutions on the H/ACA ribonucleoprotein particle pseudouridine synthase
    Jing Zhou
    Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306, USA
    Biochemistry 49:6276-81. 2010
    ..Here we describe the impact of chemical substitutions of target uridine on enzyme activity and structure...
  78. pmc Novel methyltransferase for modified uridine residues at the wobble position of tRNA
    Hamid R Kalhor
    Department of Chemistry and Biochemistry, UCLA Molecular Biology Institute, University of California Los Angeles, 611 Charles E Young Drive East, Los Angeles, CA 90095, USA
    Mol Cell Biol 23:9283-92. 2003
    ..This enzyme, the product of the YML014w gene, catalyzes the esterification of modified uridine nucleotides, resulting in the formation of 5-methylcarbonylmethyluridine in tRNA(Arg3) and 5-methylcarbonylmethyl-..
  79. ncbi Modulation of antibody galactosylation through feeding of uridine, manganese chloride, and galactose
    Michael J Gramer
    Genmab MN, Inc, 9450 Winnetka Ave N, Brooklyn Park, Minnesota 55445, USA
    Biotechnol Bioeng 108:1591-602. 2011
    ..b>Uridine (U), manganese chloride (M), and galactose (G), constituents involved in the intracellular galactosylation ..
  80. ncbi Synthesis of 3'-deoxynucleosides with 2-oxabicyclo[3.1.0]hexane sugar moieties: addition of difluorocarbene to a 3',4'-unsaturated uridine derivative and 1,2-dihydrofurans derived from D- and L-xylose1
    Ireneusz Nowak
    Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602 5700, USA
    J Org Chem 72:3319-25. 2007
    Syntheses of 3'-deoxy analogues of adenosine, cytidine, and uridine with a 2,2-difluorocyclopropane ring fused at C3'-C4' are described...
  81. ncbi Increased uridine adenosine tetraphosphate concentrations in plasma of juvenile hypertensives
    Vera Jankowski
    Medizinische Klinik IV, Charité University of Berlin, Germany
    Arterioscler Thromb Vasc Biol 27:1776-81. 2007
    b>Uridine adenosine tetraphosphate (Up4A) was been recently characterized as a potent vasoconstrictor. Up4A occurs in plasma from healthy subjects at concentrations sufficient to cause strong vasoconstrictive effects...
  82. ncbi Uptake of the anthracycline pirarubicin into mouse M5076 ovarian sarcoma cells via a sodium-dependent nucleoside transport system
    Katsuhito Nagai
    Department of Environmental Biochemistry, Kyoto Pharmaceutical University, 5 Nakauchi cho, Misasagi, Yamashina ku, Kyoto, 607 8414, Japan
    Cancer Chemother Pharmacol 55:222-30. 2005
    ..To clarify their transport mechanism, we examined whether or not Na+/nucleoside cotransporter (CNT) is involved in the uptake of THP by M5076 cells...
  83. ncbi Conserved glutamate residues are critically involved in Na+/nucleoside cotransport by human concentrative nucleoside transporter 1 (hCNT1)
    Sylvia Y M Yao
    Membrane Protein Research Group, Department of Physiology, University of Alberta and Cross Cancer Institute, Edmonton, Alberta T6G 2H7, Canada
    J Biol Chem 282:30607-17. 2007
    ..Five of the resulting mutants showed unchanged Na+-dependent uridine transport activity (D172N, E338Q, E389Q, E413Q, and D565N) and were not investigated further...
  84. ncbi Oral uridine pro-drug PN401 is neuroprotective in the R6/2 and N171-82Q mouse models of Huntington's disease
    Joel A Saydoff
    Neuroscience Research, Wellstat Therapeutics Corporation, 930 Clopper Road, Gaithersburg, MD 20878, USA
    Neurobiol Dis 24:455-65. 2006
    Previously, uridine pro-drug 2',3',5'-tri-O-acetyluridine (PN401) was shown to be protective in the mitochondrial complex II inhibitor 3-nitropropionic acid model of Huntington's disease (HD)...
  85. ncbi Nucleic acid agonists for Toll-like receptor 7 are defined by the presence of uridine ribonucleotides
    Sandra S Diebold
    Immunobiology Laboratory, Cancer Research UK, London Research Institute, London, UK
    Eur J Immunol 36:3256-67. 2006
    ..Here, we identify nucleic acids that act as TLR7 agonists for mouse and human cells. We show that uridine and ribose, the two defining features of RNA, are both necessary and sufficient for TLR7 stimulation, and that ..
  86. pmc Substituted cysteine accessibility method analysis of human concentrative nucleoside transporter hCNT3 reveals a novel discontinuous region of functional importance within the CNT family motif (G/A)XKX3NEFVA(Y/M/F)
    Melissa D Slugoski
    Department of Physiology, Membrane Protein Research Group, University of Alberta, Edmonton, Alberta T6G 2H7, Canada
    J Biol Chem 284:17281-92. 2009
    ....
  87. pmc Conserved glutamate residues Glu-343 and Glu-519 provide mechanistic insights into cation/nucleoside cotransport by human concentrative nucleoside transporter hCNT3
    Melissa D Slugoski
    Department of Physiology, University of Alberta, Edmonton, Alberta T6G 2H7, Canada
    J Biol Chem 284:17266-80. 2009
    ..Both residues were accessible to the external medium and inhibited by p-chloromercuribenzene sulfonate when converted to cysteine...
  88. pmc Constrained bonding environment in the Michaelis complex of Trypanosoma cruzi uridine phosphorylase
    Rafael G Silva
    Department of Biochemistry, Albert Einstein College of Medicine of Yeshiva University, 1300 Morris Park Avenue, Bronx, NY 10461, USA
    Biochemistry 51:6715-7. 2012
    The transition state for the Trypanosoma cruzi uridine phosphorylase (TcUP) reaction has an expanded S(N)2 character...
  89. pmc Uridine insertion/deletion RNA editing in Trypanosomatids: specific stimulation in vitro of Leishmania tarentolae REL1 RNA ligase activity by the MP63 zinc finger protein
    Guanghan Gao
    Department of Cardiodiagnostics, 200 UCLA Medical Plaza, Suite 330, Los Angeles, CA 90095, USA
    Protist 161:489-96. 2010
    ..The specificity for REL1 is consistent with MP63 being a component of the REL1 subcomplex. These results suggest that in vivo the interaction of MP63 with REL1 may play a role in regulating the overall activity of RNA editing...
  90. ncbi Photochemistry of benzophenone immobilized in a major groove of DNA: formation of thermally reversible interstrand cross-link
    Kazuhiko Nakatani
    Department of Synthetic Chemistry and Biological Chemistry, Faculty of Engineering, Kyoto University, Kyoto 606 8501, Japan
    J Am Chem Soc 124:2118-9. 2002
    ..The cross-link was found spontaneously reverted to original oligomers upon heating, providing a new method for the temporary connection of two DNA strands...
  91. ncbi The pseudouridine synthases: revisiting a mechanism that seemed settled
    Christopher J Spedaliere
    Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA
    J Am Chem Soc 126:12758-9. 2004
    ..5-fluorouridine, [f 5U]RNA, has been used as a mechanistic probe for the pseudouridine synthases, which convert uridine in RNA to its C-glycoside isomer, pseudouridine...
  92. ncbi Subcellular distribution and membrane topology of the mammalian concentrative Na+-nucleoside cotransporter rCNT1
    S R Hamilton
    School of Biochemistry and Molecular Biology, University of Leeds, Leeds LS2 9JT, The United Kingdom
    J Biol Chem 276:27981-8. 2001
    ..for transporter function; truncated proteins lacking these helices, derived either from rCNT1 or from its human homolog hCNT1, were found to retain significant sodium-dependent uridine transport activity when expressed in oocytes.
  93. pmc Zcchc11 uridylates mature miRNAs to enhance neonatal IGF-1 expression, growth, and survival
    Matthew R Jones
    Pulmonary Center, Boston University School of Medicine, Boston, Massachusetts, United States of America
    PLoS Genet 8:e1003105. 2012
    ..Zcchc11 deficiency diminished the lengths and terminal uridine frequencies for diverse mature miRNAs, but it had no influence on the quantities of any miRNAs...
  94. pmc Cysteine-accessibility analysis of transmembrane domains 11-13 of human concentrative nucleoside transporter 3
    Jing Zhang
    Membrane Protein Research Group, University of Alberta, Edmonton, AL, Canada T6G 2H7
    Biochem J 394:389-98. 2006
    ..To understand its uridine binding and translocation mechanisms, a cysteine-less version of hCNT3 was constructed and used for cysteine-..
  95. ncbi Inhibition of mammalian RNA synthesis by the cytoplasmic Ca2+ buffer BAPTA. Analyses of [3H]uridine incorporation and stress-dependent transcription
    Jie Shang
    Department of Pharmacology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, Texas 75390 9041, USA
    Biochemistry 43:9576-82. 2004
    ..However, general inhibition of RNA synthesis by the [Ca(2+)] buffer BAPTA was unanticipated. This might possibly reflect a fortuitous interaction of BAPTA with the RNA synthesis machinery or a requirement for [Ca(2+)] changes...
  96. ncbi Efficient synthesis of [2'-18O]uridine and its incorporation into oligonucleotides: a new tool for mechanistic study of nucleotidyl transfer reactions by isotope effect analysis
    Qing Dai
    Department of Biochemistry and Molecular Biology, Department of Chemistry, and Howard Hughes Medical Institute, The University of Chicago, MC 1028, Chicago, Illinois 60637, USA
    J Org Chem 73:309-11. 2008
    ..with [(18)O2]benzoic acid/potassium hydride, allowing an efficient "one-pot" synthesis of [2'-18O]uridine in 88% yield...
  97. pmc Structural basis for polypyrimidine tract recognition by the essential pre-mRNA splicing factor U2AF65
    E Allen Sickmier
    Department of Biochemistry and Molecular Biology, Johns Hopkins University Bloomberg School of Public Health, Baltimore, Maryland 21205, USA
    Mol Cell 23:49-59. 2006
    ..Py tracts are relatively poorly conserved in higher eukaryotes, U2AF(65) is faced with the problem of specifying uridine-rich sequences, yet tolerating a variety of nucleotide substitutions found in natural Py tracts...
  98. pmc Chemical synthesis of LNA-2-thiouridine and its influence on stability and selectivity of oligonucleotide binding to RNA
    Marta Carlucci
    Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61 704 Poznan, Noskowskiego 12 14, Poland
    Biochemistry 48:10882-93. 2009
    ..It is known, however, that replacement of uridine with 2-thiouridine significantly improves binding and selectivity...
  99. ncbi Protein-ligand interaction: grafting of the uridine-specific determinants from the CytR regulator of Salmonella typhimurium to Escherichia coli CytR
    L E Thomsen
    Department of Molecular Biology, Odense University, Campusvej 55, Odense M, DK 5230, Denmark
    J Mol Biol 288:165-75. 1999
    ..CytR of S. typhimurium (CytRSt) appears to respond to the presence of both uridine and cytidine nucleosides, whereas E. coli CytR (CytREc) responds to cytidine only...
  100. pmc Glycosidic bond conformation preference plays a pivotal role in catalysis of RNA pseudouridylation: a combined simulation and structural study
    Jing Zhou
    Department of Chemistry and Biochemistry, Florida State University, Tallahassee, FL 32306, USA
    J Mol Biol 401:690-5. 2010
    The most abundant chemical modification on RNA is isomerization of uridine (or pseudouridylation) catalyzed by pseudouridine synthases...
  101. pmc Selectivity and affinity of DNA triplex forming oligonucleotides containing the nucleoside analogues 2'-O-methyl-5-(3-amino-1-propynyl)uridine and 2'-O-methyl-5-propynyluridine
    Hong Li
    Laboratory of Molecular Gerontology, National Institute on Aging, National Institutes of Health, Baltimore, Maryland 21224, USA
    Org Biomol Chem 6:4212-7. 2008
    ..containing the nucleoside analogues 2'-O-methyl-5-propynyluridine (1) and 2'-O-methyl-5-(3-amino-1-propynyl)uridine (2) were synthesized...

Research Grants64

  1. T cell regulation by N-glycosylation
    Michael Demetriou; Fiscal Year: 2013
    ..Supplementing T cells with hexosamine pathway metabolites (i.e. GlcNAc, uridine) increases UDP-GlcNAc supply and GlcNAc branching, and in turn suppresses TCR hyperactivity, enhances CTLA-4 ..
  2. Translational Machinery in Stress Signaling and Tumor Suppression
    THOMAS J contact BEGLEY; Fiscal Year: 2010
    ..show loss of the gene encoding TRM9 (KIAA1456)3 which encodes a tRNA methyltransferase that modifies the uridine wobble base of tRNAARG(UCU) and tRNAGLU(UUC)...
  3. Developing miRNA diagnostic methods and identifying tumor regulatory networks
    Thomas Tuschl; Fiscal Year: 2010
    ..to gain insights into the biology of miRNA deregulation, we will apply our recently developed Photoreactive-Uridine-Enhanced Crosslinking and Immunoprecipitation (PURE- CLIP) method of miRNA-bound Argonaute protein complexes to ..
  4. Protein Modifications and Unfolded Protein Response in Diabetic Embryopathy
    Zhiyong Zhao; Fiscal Year: 2013
    ..glycolysis) in the embryo, augmenting the hexosamine biosynthetic pathway (HBP) to produce high levels of uridine diphosphate N-acetylglucosamine (UDP-GlcNAc)...
  5. Analysis of NKLAM: A Novel Gene Associated With Cellular Cytotoxicity
    Jacki Kornbluth; Fiscal Year: 2013
    ..We identified a protein, uridine-cytidine kinase-like 1 (UCKL-1), which is ubiquitinated by NKLAM. The function of this novel protein is unknown...
  6. Role of Natural Killer Lytic-Associated Molecule (NKLAM) in Natural Killer Functi
    Jacki Kornbluth; Fiscal Year: 2010
    ..The function of this novel protein, called uridine-cytidine kinase-like 1 (UCKL-1), is unknown;however, its homology to uridine kinases and overexpression in tumor ..
  7. Metabolism and toxicity of NRTIs in non-replicating tissues
    Edward E McKee; Fiscal Year: 2013
    ..with mtDNA depletion, and if so;3) study the effect of exogenous addition of competing deoxynucleosides and/or uridine on NRTI phosphorylation and mtDNA depletion;4) Determine if any of NRTIs inhibit phosphorylation of the typical ..
  8. FUNCTION OF THE KINETOPLAST IN THE HEMOFLAGELLATES
    Larry Simpson; Fiscal Year: 2013
    ..a functional high resolution 3D structure for the core multiprotein complex involved in trypanosome mitochondrial uridine insertion/deletion RNA editing in which U's are inserted and deleted within coding regions of mRNAs...
  9. Interplay between metabolism and FXR activation in scoparone signaling
    Bingfang Yan; Fiscal Year: 2013
    ..Scoparone is recognized as a major hepatic protective compound and has been shown to induce mouse uridine diphosphate-5[unreadable]-glucuronosyltransferase-1A1 (UGT1A1), a bilirubin detoxification enzyme...
  10. RNA Modifications as Biomarkers of Environmental Stress and Inflammation
    Thomas J Begley; Fiscal Year: 2013
    ..We have recently demonstrated that enzyme-catalyzed methylation of a modified uridine (mcm5U) in tRNA plays a role in codon- specific translational control after DNA damage, and we have preliminary ..
  11. The role of tristetraprolin in control of breast cancer progression
    Jianguo Liu; Fiscal Year: 2013
    ..TTP binds to adenine-uridine-rich elements (AREs) within the 3'untranslated region (3'UTR) causing destabilization of mRNAs encoding ..
  12. MECHANISM OF IMMUNOGLOBULIN HYPERMUTATION
    URSULA B STORB; Fiscal Year: 2012
    ..SHM) of immunoglobulin (Ig) genes is initiated by the cytidine deaminase AID creating cytidine (C) to uridine (U) transition mutations...
  13. Nucleoside hydrolase Inhibitors from natural products for Leishmania
    ESTEBAN EDWARD MENA; Fiscal Year: 2010
    ..strain of yeast that requires the activity of the Leishmania major nucleoside hydrolase for growth on uridine as the sole source of uracil and the in vitro models of leishmaniasis...
  14. Molecular Pathogenesis and Treatment of MNGIE
    Michio Hirano; Fiscal Year: 2013
    ..We have generated a TP and uridine phosphorylase (UP) double-knockout (TP-/-UP-/-) mouse model of MNGIE...
  15. Targeting of AID Mutagenic Activity
    David Kazadi; Fiscal Year: 2013
    ..AID deaminates cytidine residues of its DNA substrates. This deamination results in the presence of a uridine residues, eliciting a variety of cellular responses to the dU:dG mismatch...
  16. Herb-Drug Glucuronidation Interactions
    Reginald F Frye; Fiscal Year: 2011
    ..regarding the potential of herbal supplements to interact with medications that undergo conjugative metabolism by uridine diphosphate glucuronosyl transferase (UGT) enzymes...
  17. Assay for Compounds that Elicit Misprocessing of Small Nuclear RNA
    Eric Wagner; Fiscal Year: 2009
    DESCRIPTION (provided by applicant): The uridine-rich small nuclear RNAs (U-snRNAs) play an integral role in the expression of virtually all other genes...
  18. Guide RNA Binding Complex
    RUSLAN AFASIZHEV; Fiscal Year: 2013
    ..Mitochondrial genes are encoded in maxicircles, but most are encrypted: an extensive post-transcriptional uridine insertion/deletion RNA editing is required to produce open reading frames...
  19. Mitochondrial Toxicity of Antiviral Nucleosides
    Edward E McKee; Fiscal Year: 2010
    ..Since AZT is a competitive inhibitor of thymidine kinase 2, we will also test the effects of thymidine and uridine on reversing AZT toxicity, and on reversing changes in the deoxynucleotide pools...
  20. Role of rRNA Modifications in Dyskeratosis Congenita and Translation Control
    Davide Ruggero; Fiscal Year: 2009
    ..modification of ribosomal RNA (rRNA) of both large and small ribosomal subunits through conversion of the uridine nucleotide (U) to pseudouridine (psi)...
  21. Colorectal cancer chemoprevention with phytochemical combinations
    Swati Nagar; Fiscal Year: 2013
    ..e. uridine diphosphoglucuronosyltransferases (mammalian UGT;human UGT, mouse ugt)...
  22. CysLT and P2Y Receptors in Lung Inflammation
    Joshua A Boyce; Fiscal Year: 2013
    ..funding cycle, we discovered that P2Y6 receptors, which are high affinity G protein-coupled receptors (GPCRs) for uridine diphosphate (UDP), cross-regulate the functions of the type 1 receptor for cysteinyl leukotrienes (cys- LTs), ..
  23. Structures and Functions of RNA Editing TUTases
    RUSLAN AFASIZHEV; Fiscal Year: 2013
    ..diverged from other eukaryotes early in evolution and possess many unique RNA processing pathways such as uridine insertion/deletion editing of mitochondrial mRNAs...
  24. PSEUDOURIDINE SYNTHASES
    EUGENE MUELLER; Fiscal Year: 2009
    Pseudouridine is the most common post-transcriptional modification of RNA, and arises from the isomerization of uridine catalyzed by the pseudouridine synthases...
  25. Conjugation of anticancer drugs
    Swati Nagar; Fiscal Year: 2010
    ..1) Determine the pharmacologic activity of RSV conjugates, and 2) Characterize the effect of RSV on human uridine glucuronosyltransferase (UGT) and sulfotransferase (SULT) induction / inhibition...
  26. Structure and Function of Concentrative Nucleoside Transporters
    Seok Yong Lee; Fiscal Year: 2013
    ..We solved the crystal structure of vcCNT in complex with uridine. The structure reveals the overall architecture and the nucleoside-binding site of the transporter, providing ..
  27. Molecular Mechanisms of HIV Disease Pathogenesis
    Kathleen L Collins; Fiscal Year: 2013
    ..We will test this hypothesis by measuring uridine incorporation and HIV DNA stability in HIV-infected macrophages plus or minus Vpr...
  28. Pubertal Organization of Brain and Behavior
    Cheryl L Sisk; Fiscal Year: 2012
    ..Using the cell birth-date marker bromo-deoxy-uridine in combination with markers of cell function and pharmacological inhibition of brain cytogenesis, Aim 3 will ..
  29. REGULATION OF PYRIMIDINE GENE EXPRESSION IN BACTERIA
    CHARLES TURNBOUGH; Fiscal Year: 2001
    ..include cya (adenylate cyclase), metY-nusA-infB (tRNAfMet, NusA, and IF2), gal (galactose catabolism), udk (uridine kinase), atp (ATP synthetase subunits), pheST (phenylalanyl-tRNA synthetase), purMN (purine biosynthesis), and ..
  30. T. Gondii: Pyrimidine Synthesis as a Chemo Target
    David J Bzik; Fiscal Year: 2013
    ..Due to the need for uridine monophosphate in all life stages, we hypothesize that pyrimidine biosynthesis is necessary to sustain rapid ..
  31. Critical Interactions of APOBEC3s: Molecular Approaches to Novel HIV Therapies
    Reuben S Harris; Fiscal Year: 2013
    ..oligomerizes during HIV restriction, (ii) define how A3G binds single-strand DNA and catalyzes cytidine to uridine deamination, and (iii) dissect the Vif interaction surfaces of A3G and A3F to fully understand critical ..
  32. Mechanistic Elucidation of RNA Modifying Enzymes
    Eugene G Mueller; Fiscal Year: 2013
    ..Pseudouridine synthases convert uridine residues in RNA into pseudouridine, the C-glycoside isomer...
  33. Regulation of RNA editing in Trypanosoma brucei
    Laurie K Read; Fiscal Year: 2013
    ..Development of new drugs requires a detailed molecular understanding of parasite biology. Mitochondrial uridine insertion/deletion RNA editing is unique to kinetoplastids and absent from their human hosts...
  34. APOLIPOPROTEIN B48 AND LIPOPROTEIN METABOLISM
    Lawrence Chan; Fiscal Year: 2004
    ..is a process whereby the cytidine (C) in a CAA codon in apoB-100 mRNA, encoding Gln-2153, is deaminated to a uridine (U), producing an in-frame UAA stop codon in apoB-48 mRNA...
  35. Characterization of Pseudouridene Synthase TruD
    CLAUDIA CAROLINA RECINOS; Fiscal Year: 2010
    DESCRIPTION (provided by applicant): Pseudouridine, the 5'ribosyl isomer of uridine, is the most common modified ribonucleoside and is found in all stable RNAs...
  36. Mitochondrial poly(A) Polymerases of Trypanosomes
    Ruslan Aphasizhev; Fiscal Year: 2009
    ..been extensively studied, producing major advances in the understanding of kinetoplast DNA (kDNA) replication and uridine insertion/deletion mRNA editing...
  37. MITOCHONDRIAL RNA EDITING IN TRYPANOSOMA BRUCEI
    DONNA KOSLOWSKY; Fiscal Year: 1999
    ..The editing of messenger transcripts in these organisms can create over half of the mRNA by uridine insertions...
  38. CHITIN BIOSYNTHESIS AND THE MOSQUITO PERITROPHIC MATRIX
    Bruce Christensen; Fiscal Year: 2007
    ..enzymes, glucosamine-6-phosphate N-acetyltransferase (GNAT), phosphoacetyl glucosamine mutase (AGM), and uridine diphosphate-N-acetylglucosamine pyrophophrylase (UAP) are also involved in this pathway but have never been ..
  39. The Chemistry and Biology of Galactofuranose Residues
    Laura L Kiessling; Fiscal Year: 2013
    ..investigate the structure, catalytic mechanism, and function of two key enzymes in this process: the flavoenzyme uridine-5'-diphosphate (UDP)-galactopyranose mutase (Glf or UGM) and the galactosylfuranosyltransferase GlfT2...
  40. AID in somatic mutation of immunoglobulin genes
    URSULA B STORB; Fiscal Year: 2010
    ..hypermutation (SHM) of immunoglobulin genes is initiated by the cytidine deaminase AID creating cytidine (C) to uridine (U) transition mutations...
  41. MECHANISM OF ACTION OF NEW ANTICANCER AGENTS
    WILLIAM CREASEY; Fiscal Year: 1980
    ..Incorporation of radiolabeled precursors will be followed in vivo and in vitro: thymidine and uridine into nucleotides and nucleic acids; phenylalanine into the proteins; acetate into lipids; and these precursors ..
  42. Lethal Mutagenesis as an Antiviral Strategy
    Craig Cameron; Fiscal Year: 2007
    ..RTP is a substrate for viral RNA-dependent RNA polymerases (RdRP) and is incorporated opposite both cytidine and uridine. The lack of specific incorporation of ribavirin causes an increase in the mutation frequency of the virus beyond ..
  43. P2Y-PURINERGIC RECEPTORS
    T Kendall Harden; Fiscal Year: 2012
    ..We recently have made considerable progress in defining structure activity relationships at the uridine nucleotide- activated P2Y2, P2Y4, and P2Y6 receptors and at the nucleotide sugar-activated P2Y14 receptor...
  44. Pseudouridines, pseudouridine synthases, and ribosomes
    MURRAY DEUTSCHER; Fiscal Year: 2006
    ..This unique reaction involves breaking the uridine N-C glycosyl bond, rotating the uracil base, and reforming a C-C glycosyl link...
  45. Targeting MraY: Synthesis and Validation of MraY Inhibitors
    Michio Kurosu; Fiscal Year: 2013
    ..In addition, over the past years we obtained extensive knowledge of synthetic accessibility of uridine-amino-alcohol containing molecules in solution or on the polymer- support...
  46. BLOOD-BRAIN BARRIER TRANSPORT OF THYMIDINE ANALOGS
    Ashim Mitra; Fiscal Year: 1990
    ..However, clinically useful thymidine analogs like 5-iodo-2'-deoxy uridine (IDU) do not readily undergo transcellular transport across lipoidal brain capillary endothelium because of it ..
  47. POST-TRANSCRIPTIONAL CONTROL OF THE HEART AND LUNGS
    Carlos Gonzalez; Fiscal Year: 2004
    ..These transcripts harbor Adenosine/Uridine-rich elements (AREs) in their 3' untranslated regions (3'-UTR) which play a role in regulating their stability ..
  48. ROLE AND FUNCTIONS OF PYRIMIDINES IN CANCER THERAPY
    Giuseppe Pizzorno; Fiscal Year: 2004
    DESCRIPTION: (Applicant's Abstract) Uridine has been shown to play a crucial role in modulating the cytotoxic effects of fluoropyrimidines in both normal and tumor tissues...
  49. Glucuronidation in Humans--Genotypes and Phenotypes
    Johanna Lampe; Fiscal Year: 2004
    ..UDP-glucuronosyltransferases (UGTs) catalyze the transfer of the glucuronyl group from uridine 5'-disphosphoglucuronic acid to endogenous molecules, such as bilirubin and steroid hormones, and exogenous ..
  50. 3-D STRUCTURES OF URIDINE & THYMIDINE PHOSPHORYLASES
    Steven Ealick; Fiscal Year: 1991
    The objective is to determine the three-dimensional structures of uridine phosphorylase and thymidine phosphorylase...
  51. CONTROL OF ANF PRODUCTION IN HYPERTENSION
    BALVIN CHUA; Fiscal Year: 1990
    ..Rates of pre-ANF mRNA synthesis will be based on the incorporation of (3H) uridine into pre-ANF mRNA during the period when labeling is rising linearly, and the specific activity of UTP, and, when ..
  52. Biochemical System for Study of DNA Repair
    Weiguo Cao; Fiscal Year: 2003
    ..DNA deamination results in conversion of adenosine to inosine, cytosine to uridine, and guanosine to xanthosine...
  53. GRNA/MRNA INTERACTIONS IN TRYPANSOME RNA EDITING
    DONNA KOSLOWSKY; Fiscal Year: 2005
    ..All of the gRNAs identified to date have defined 5' anchor sequences, guiding sequences and a non-encoded 3' uridine tail...
  54. ENZYME INTERMEDIATE STRUCTURES BY NMR
    Michael Smerdon; Fiscal Year: 2002
    ..The project will be extended to include uridine diphosphate N-acetyl-glucosamine enolpyruvyl transferase (UDP-NAG EPT) and 3-deoxy-D-manno-2-octulosonate-8-..
  55. The Chemistry and Biology of Galactofuranose Residues
    LAURA KIESSLING; Fiscal Year: 2009
    ..Aim 1 is to understand the mechanism of the key enzyme in this process: the flavoenzyme uridine-5'-diphosphate (UDP)-galactopyranose mutase (Glf or 'C; phi 1141 mfg coo ID0 v centh+ Significance: The ..
  56. DIABETIC GLOMERULOPATHY AND PYRIMIDINE METABOLISM
    Pedro Cortes; Fiscal Year: 1991
    ..be modulated by the degree of glycosylation of newly formed collagen, a concomitantly enhanced bioavailability of uridine diphosphosugars (UDP-sugars) (coenzymes necessary for glycosyl transfer) could be an important determinant of ..
  57. RNA as the catalyst for screening drugs against trypanosomatids
    Reza Salavati; Fiscal Year: 2006
    ..organisms, by which precursor mRNA sequences are changed, often extensively, by the insertion and the deletion of uridine nucleotides. The edited mRNAs are translated into components of the oxidative phosphorylation system...
  58. MERCURY NEUROTOXICITY: ROLE OF LIPOPEROXIDATION INJURY
    M Verity; Fiscal Year: 1990
    ..of brain aminoacyl t-RNA synthetases and inhibition of transcription associated with impaired phosphorylation of uridine nucleotides...
  59. UMP SYNTHASE AND THE MOLECULAR BASIS OF OROTIC ACIDURIA
    DALE SUTTLE; Fiscal Year: 1991
    UMP synthase is a bifunctional protein catalyzing the final two steps in the de novo biosynthesis of uridine 5' monophosphate (UMP)...
  60. UDP-Glucuronic Acid Regeneration System
    INMAR MUNIR; Fiscal Year: 2004
    ..Glucuronides are formed by a super family of uridine diphosphoglucuronosyl transverses (UGTs) that convert a number of lipophilic xenobiotics (drugs, steroids, ..
  61. RELATIONSHIP BETWEEN DNA STRUCTURE AND ADDUCT FORMATION
    Barry Gold; Fiscal Year: 2004
    ..DNA induced by the localization of cationic charge in the major groove by the introduction of 5-(omega-aminoalkyl)uridine residues into DNA...
  62. Activation-induced deaminase as a mutator oncogene
    Andrea Bottaro; Fiscal Year: 2006
    ..editing enzyme APOBEC-1, recent findings suggest that it may act directly on DNA, changing cytidine residues into uridine. This application is based on the hypothesis that loss of regulation of AID activity results in somatic ..
  63. IMPACT OF 5FU ON THE STRUCTURE OF THE U4/U6 COMPLEX
    WILLIAM GMEINER; Fiscal Year: 2000
    ..5-FU) disrupts the RNA mediated processes is to what extent protein-RNA interactions are perturbed when uridine (s) (Urd) in the protein recognition site(s) of the RNA are substituted with FUrd...
  64. UDP -Glucuronic Acid Regeneration System
    INMAR MUNIR; Fiscal Year: 2006
    ..Glucuronides are formed by a super family of uridine diphosphoglucuronosyl transferases (UGTs) that convert a number of lipophilic xenobiotics (drugs, steroids, ..