deoxyribonucleosides

Summary

Summary: A purine or pyrimidine base bonded to DEOXYRIBOSE.

Top Publications

  1. ncbi Linear free energy correlations for enzymatic base flipping: how do damaged base pairs facilitate specific recognition?
    Daniel J Krosky
    Department of Pharmacology and Molecular Sciences, The Johns Hopkins School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA
    Biochemistry 43:4188-95. 2004
  2. ncbi Pyrrolo-dC oligonucleotides bearing alkynyl side chains with terminal triple bonds: synthesis, base pairing and fluorescent dye conjugates prepared by the azide-alkyne "click" reaction
    Frank Seela
    Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 4814, Munster, Germany
    Org Biomol Chem 6:1674-87. 2008
  3. ncbi Recognition by viral and cellular DNA polymerases of nucleosides bearing bases with nonstandard hydrogen bonding patterns
    J Horlacher
    Bio Organische Chemie, Eidgenössiche Technische Hochschule Zurich, Switzerland
    Proc Natl Acad Sci U S A 92:6329-33. 1995
  4. ncbi DNA repair and the origins of urinary oxidized 2'-deoxyribonucleosides
    Mark D Evans
    Radiation and Oxidative Stress Section, Department of Cancer Studies and Molecular Medicine, University of Leicester, Leicester LE1 7RH, UK
    Mutagenesis 25:433-42. 2010
  5. ncbi Review of recent studies on resistance to cytotoxic deoxynucleoside analogues
    Lars Petter Jordheim
    International Agency for Research on Cancer, 150, cours Albert Thomas, 69372 Lyon Cedex 08, France
    Biochim Biophys Acta 1776:138-59. 2007
  6. ncbi Enzymatic incorporation of a third nucleobase pair
    Zunyi Yang
    Foundation for Applied Molecular Evolution, 1115 NW 4th Street, Gainesville, FL 32601, USA
    Nucleic Acids Res 35:4238-49. 2007
  7. ncbi Reaction of 2'-deoxyribonucleosides with cis- and trans-1,4-dioxo-2-butene
    Tonika Bohnert
    Biological Engineering Division, NE47-277, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Biochem Biophys Res Commun 323:838-44. 2004
  8. ncbi Artificially expanded genetic information system: a new base pair with an alternative hydrogen bonding pattern
    Zunyi Yang
    Foundation for Applied Molecular Evolution, 1115 NW 4th Street, Gainesville, FL 32601, USA
    Nucleic Acids Res 34:6095-101. 2006
  9. ncbi Anaerobic growth of Bacillus mojavensis and Bacillus subtilis requires deoxyribonucleosides or DNA
    Martha J Folmsbee
    University of Oklahoma, 770 Van Vleet Oval, Norman, OK 73019 0245, USA
    Appl Environ Microbiol 70:5252-7. 2004
  10. ncbi Thermolytic carbonates for potential 5'-hydroxyl protection of deoxyribonucleosides
    Marcin K Chmielewski
    Division of Therapeutic Proteins, Center for Biologics Evaluation and Research, Food and Drug Administration, 8800 Rockville Pike, Bethesda, Maryland 20892, USA
    J Org Chem 68:10003-12. 2003

Research Grants

  1. ANTIHIV OLIGONUCLEOTIDES REACTIVE FUNCTIONAL GROUPS
    Paul Miller; Fiscal Year: 2000
  2. ADIPOCYTE TURNOVER AND METABOLISM IN HIV-1 LIPOATROPHY
    Marc Hellerstein; Fiscal Year: 2003
  3. RADIATION DAMAGE TO DNA--EFFECTS OF MODIFIERS AND LET
    Michael Sevilla; Fiscal Year: 2003
  4. MOLECULAR EFFECTORS OF ENZYMATIC SYNTHESIS OF DNA
    MUKUND MODAK; Fiscal Year: 2003
  5. Response to and signals of caloric restriction and intermittent feeding regimens
    MARC KOPEL HELLERSTEIN; Fiscal Year: 2010
  6. Chemical Approaches to DNA Topoisomerase Inhibition and Function
    James T Stivers; Fiscal Year: 2010
  7. Mechanisms for Radiation Damage to DNA: LET Effects
    Michael Sevilla; Fiscal Year: 2007
  8. Mechanistic Biology of Topoisomerase 1B
    JAMES STIVERS; Fiscal Year: 2006
  9. MECHANISMS AND TRANSITION STATES FOR DNA GLYCOSYLASES
    JAMES STIVERS; Fiscal Year: 2005
  10. Uracil Damage Recognition by Uracil DNA Glyocosylase
    JAMES STIVERS; Fiscal Year: 2009

Scientific Experts

Detail Information

Publications173 found, 100 shown here

  1. ncbi Linear free energy correlations for enzymatic base flipping: how do damaged base pairs facilitate specific recognition?
    Daniel J Krosky
    Department of Pharmacology and Molecular Sciences, The Johns Hopkins School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA
    Biochemistry 43:4188-95. 2004
    ..In contrast, the intrinsic instability of other more egregious DNA lesions may contribute significantly to the specificity of other DNA repair enzymes that bind to extrahelical bases...
  2. ncbi Pyrrolo-dC oligonucleotides bearing alkynyl side chains with terminal triple bonds: synthesis, base pairing and fluorescent dye conjugates prepared by the azide-alkyne "click" reaction
    Frank Seela
    Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 4814, Munster, Germany
    Org Biomol Chem 6:1674-87. 2008
    ..The click reaction was also performed on oligonucleotides containing the pyrdC-derivative and the fluorescence properties of nucleosides, oligonucleotides and their coumarin conjugates were studied...
  3. ncbi Recognition by viral and cellular DNA polymerases of nucleosides bearing bases with nonstandard hydrogen bonding patterns
    J Horlacher
    Bio Organische Chemie, Eidgenössiche Technische Hochschule Zurich, Switzerland
    Proc Natl Acad Sci U S A 92:6329-33. 1995
    ..These results are discussed in light of the crystal structure for pol beta and general considerations of how polymerases must interact with an incoming base pair to faithfully copy genetic information...
  4. ncbi DNA repair and the origins of urinary oxidized 2'-deoxyribonucleosides
    Mark D Evans
    Radiation and Oxidative Stress Section, Department of Cancer Studies and Molecular Medicine, University of Leicester, Leicester LE1 7RH, UK
    Mutagenesis 25:433-42. 2010
    ..The analysis of DNA oxidation, by measurement of oxidized 2'-deoxyribonucleosides in urine, particularly 8-oxo-7,8-dihydro-2'-deoxyguanosine (8-oxodG), has been reported extensively in the ..
  5. ncbi Review of recent studies on resistance to cytotoxic deoxynucleoside analogues
    Lars Petter Jordheim
    International Agency for Research on Cancer, 150, cours Albert Thomas, 69372 Lyon Cedex 08, France
    Biochim Biophys Acta 1776:138-59. 2007
    ..We also gave an overview on the chemical and biological development of modified deoxynucleoside analogues such as conjugates and pronucleotides...
  6. ncbi Enzymatic incorporation of a third nucleobase pair
    Zunyi Yang
    Foundation for Applied Molecular Evolution, 1115 NW 4th Street, Gainesville, FL 32601, USA
    Nucleic Acids Res 35:4238-49. 2007
    ..The dZ:dP pair and these polymerases, should be useful in dynamic architectures for sequencing, molecular-, systems- and synthetic-biology...
  7. ncbi Reaction of 2'-deoxyribonucleosides with cis- and trans-1,4-dioxo-2-butene
    Tonika Bohnert
    Biological Engineering Division, NE47-277, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Biochem Biophys Res Commun 323:838-44. 2004
    ..3.0)octaimine ring system common to the dC adducts. These results support the genotoxic potential of furan metabolites and products of deoxyribose oxidation...
  8. ncbi Artificially expanded genetic information system: a new base pair with an alternative hydrogen bonding pattern
    Zunyi Yang
    Foundation for Applied Molecular Evolution, 1115 NW 4th Street, Gainesville, FL 32601, USA
    Nucleic Acids Res 34:6095-101. 2006
    ....
  9. ncbi Anaerobic growth of Bacillus mojavensis and Bacillus subtilis requires deoxyribonucleosides or DNA
    Martha J Folmsbee
    University of Oklahoma, 770 Van Vleet Oval, Norman, OK 73019 0245, USA
    Appl Environ Microbiol 70:5252-7. 2004
    ..39307), ROB2, and ABO21191(T) and Bacillus subtilis strains 168 (ATCC 23857) and ATCC 12332 required four deoxyribonucleosides or DNA for growth under strict anaerobic conditions...
  10. ncbi Thermolytic carbonates for potential 5'-hydroxyl protection of deoxyribonucleosides
    Marcin K Chmielewski
    Division of Therapeutic Proteins, Center for Biologics Evaluation and Research, Food and Drug Administration, 8800 Rockville Pike, Bethesda, Maryland 20892, USA
    J Org Chem 68:10003-12. 2003
    ..heat-sensitive phosphate/thiophosphate protecting groups have been evaluated for 5'-hydroxyl protection of deoxyribonucleosides as carbonates and for potential use in solid-phase oligonucleotide synthesis...
  11. ncbi Direct synthesis of 8-fluoro purine nucleosides via metalation-fluorination
    Arun K Ghosh
    Department of Chemistry, The City College and The City University of New York, 160 Convent Avenue, New York, New York 10031, USA
    J Org Chem 72:8222-6. 2007
    ..Higher yields of 8-fluoro derivatives were obtained with 2'-deoxyribonucleosides, as compared to ribonucleosides...
  12. ncbi 8-aza-7-deazaadenine and 7-deazaguanine: synthesis and properties of nucleosides and oligonucleotides with nucleobases linked at position-8
    F Seela
    , , , Barbarastr. 7, , Germany
    Nucleosides Nucleotides Nucleic Acids 20:577-85. 2001
    ..The nucleoside 4 was obtained from the corresponding ribonucleoside by deoxygenation. Oligonucleotides containing compound 4 showed similar base pairing properties as those with 2'-deoxyisoguanosine...
  13. ncbi Identification of adducts derived from reactions of (1-chloroethenyl)oxirane with nucleosides and calf thymus DNA
    Tony Munter
    Department of Chemistry, Bedson Building, University of Newcastle upon Tyne, Newcastle upon Tyne, NE1 7RU, UK
    Chem Res Toxicol 15:1549-60. 2002
    ..The adduct levels in DNA were 9,630 (dGI), 240 (dCI), 83 (dAI), 6 (dAII), and 28 (TI) pmol/mg DNA, respectively. The preferred formation of dCI may be relevant to chloroprene mutagenesis...
  14. ncbi Nucleosides with self-complementary hydrogen-bonding motifs: synthesis and base-pairing studies of two nucleosides containing the imidazo[4,5-d]pyridazine ring system
    Ravi K Ujjinamatada
    Laboratory for Drug Design and Synthesis, Department of Chemistry and Biochemistry, University of Maryland, Baltimore County, Baltimore, MD 21250, USA
    Bioorg Med Chem 14:6359-67. 2006
    Synthesis and base-pairing studies of two 2'-deoxyribonucleosides, containing a common heterocyclic base, 7(4)-amino-5(6)H-imidazo[4,5-d]pyridazin-4(7)one (1 and 2), have been reported...
  15. ncbi Conformations of adducts formed between the genotoxic benzo[a]pyrene-7,8-dione and nucleosides studied by density functional theory
    Hyun Mee Lee
    Department of Chemistry, College of Sciences, Yeungnam University, Daedong, Gyeongsan City, Gyeong buk 712 749, Republic of Korea
    Biophys Chem 125:151-8. 2007
    ..The stereochemistry-dependent variations in adduct orientation may produce different biological effects, as has been observed in the case of DNA adducts derived from other metabolites of polycyclic aromatic hydrocarbons...
  16. ncbi Fluorescent DNA base replacements: Reporters and sensors for biological systems
    James N Wilson
    Department of Chemistry, Stanford University, Stanford, CA 94305, USA
    Org Biomol Chem 4:4265-74. 2006
    ..Such compounds show promise for applications in biochemistry, biology, environmental and materials applications...
  17. ncbi DNA synthesis without base protection
    Mitsuo Sekine
    Tokyo Institute of Technology, Yokohama, Japan
    Curr Protoc Nucleic Acid Chem . 2004
    ..The discussion includes synthesis of phosphoramidite and H-phosphonate monomers, solid-phase assembly by the phosphoramidite and H-phosphonate methods, and future prospects for DNA synthesis using N-unprotected approaches...
  18. ncbi Synthesis and properties of 7-substituted 7-deazapurine (pyrrolo[2,3-d]pyrimidine) 2'-deoxyribonucleosides
    Frank Seela
    , , Germany
    Curr Protoc Nucleic Acid Chem . 2005
    7-Substituted 7-deazapurine (pyrrolo[2,3-d]pyrimidine) 2'-deoxyribonucleosides are synthesized by stereoselective nucleobase anion glycosylation...
  19. ncbi Fluorescent 2-pyrimidinone nucleoside in parallel-stranded DNA
    D N Kaluzhny
    Engelhardt Institute of Molecular Biology RASc, Moscow, Russia
    Nucleosides Nucleotides Nucleic Acids 22:1499-503. 2003
    ..Here we studied an effect of a pyrimidinone-G (PG) base pair on the stability and conformation of the ps DNA to explore whether P is useful as a structural probe...
  20. ncbi Cleavage of deoxyoxanosine-containing oligodeoxyribonucleotides by bacterial endonuclease V
    Thomas M Hitchcock
    Department of Genetics, Biochemistry and Life Science Studies, South Carolina, Experiment Station, Clemson University, Room 219, Biosystems Research Complex, 51 New Cherry Street, Clemson, SC 29634, USA
    Nucleic Acids Res 32:4071-80. 2004
    ..Hypothetic models of oxanine-containing base pairs and deaminated base recognition mechanism are presented...
  21. ncbi Recent advances in the synthesis of conformationally locked nucleosides and their success in probing the critical question of conformational preferences by their biological targets
    Yongseok Choi
    Laboratory of Medicinal Chemistry, Center for Cancer Research, National Cancer Institute at Frederick, NIH, HHS, Frederick, Maryland 21702, USA
    Nucleosides Nucleotides Nucleic Acids 22:547-57. 2003
    ..The method developed for the latter class permitted access to a novel bicyclo[3.1.0]hexene-type nucleosides structurally similar to D4T and carbovir. A structural analysis and biological activities are discussed...
  22. ncbi Oligonucleotides incorporating 8-aza-7-deazapurines: synthesis and base pairing of nucleosides with nitrogen-8 as a glycosylation position
    Junlin He
    , , Fachbereich Biologie/Chemie, , Barbarastr. 7, , Germany
    Org Biomol Chem 1:1873-83. 2003
    Oligonucleotides incorporating the unusually linked 8-aza-7-deazapurine N8-(2'-deoxyribonucleosides) 3a,b (purine and 6-amino-2-chloropurine analogues) were used as chemical probes to investigate the base pairing motifs of the universal ..
  23. ncbi Structural and energetic characterization of a DNA nucleoside pair and its anion: deoxyriboadenosine (dA)-deoxyribothymidine (dT)
    Jiande Gu
    Drug Design and Discovery Center, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Shanghai Institutes for Biological Sciences, CAS, Shanghai 201203 PR China
    J Phys Chem B 109:13067-75. 2005
    ..14 eV) has been determined for the anionic dAdT nucleoside pair. Therefore, one may expect that the stable anionic dAdT nucleoside pair should be able to undergo the subsequent glycosidic bond cleavage process...
  24. ncbi Characterization of DNA--protein cross-links induced by oxanine: cellular damage derived from nitric oxide and nitrous acid
    Hauh Jyun Candy Chen
    Department of Chemistry and Biochemistry, National Chung Cheng University, 168 University Road, Ming Hsiung, Chia Yi 62142, Taiwan
    Biochemistry 46:3952-65. 2007
    ..Because the repair mechanism of DPCs is not extensively investigated, the characterization of oxanine-derived DPC structures should shed light on their detection in vivo and on their biological consequences...
  25. ncbi Stability of 2'-deoxyxanthosine in DNA
    Viengsai Vongchampa
    Biological Engineering Division, 56-787, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Nucleic Acids Res 31:1045-51. 2003
    ..1 x 10(-4) M). We conclude that dX is a relatively stable lesion that could play a role in deamination-induced mutagenesis...
  26. ncbi Diastereocontrolled synthesis of phosphorothioate DNA via an oxazaphospholidine approach using a novel class of activators, dialkyl(cyanomethyl)ammonium salts
    Natsuhisa Oka
    Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, Japan
    Nucleosides Nucleotides Nucleic Acids 22:1411-3. 2003
    ..This new oxazaphospholidine method could efficiently produce both (Rp)- and (Sp)-dinucleoside phosphorothioates...
  27. ncbi Bispecific abs against modified protein and DNA with oxidized lipids
    Mitsugu Akagawa
    Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya 464-8601, Japan
    Proc Natl Acad Sci U S A 103:6160-5. 2006
    ..Molecular mimicry between the R-HNE-histidine configurational isomers and the ONE-DNA base adducts is proposed for the dual crossreactivity...
  28. ncbi Thermolytic 4-methylthio-1-butyl group for phosphate/thiophosphate protection in solid-phase synthesis of DNA oligonucleotides
    Jacek Cieslak
    Division of Therapeutic Proteins, Center for Drug Evaluation and Research, Food and Drug Administration, 8800 Rockville Pike, Bethesda, Maryland 20892, USA
    J Org Chem 69:2509-15. 2004
    ..When mixed with deoxyribonucleosides and N-protected 2'-deoxyribonucleosides or with a model phosphorothioate diester under conditions ..
  29. ncbi An efficient reagent for the phosphorylation of deoxyribonucleosides, DNA oligonucleotides, and their thermolytic analogues
    Cristina Ausín
    Division of Therapeutic Proteins, Center for Drug Evaluation and Research, Food and Drug Administration, 8800 Rockville Pike, Bethesda, Maryland 20892, USA
    Org Lett 7:4201-4. 2005
    ..efficiency in the synthesis of conventional 5'-/3'-phosphate/thiophosphate monoester derivatives of 2'-deoxyribonucleosides and DNA oligonucleotides...
  30. ncbi Effects of neutral, cationic, and anionic chromium ascorbate complexes on isolated human mitochondrial and genomic DNA
    Ahmet Nedim Ay
    Department of Chemistry, Hacettepe University, Beytepe Campus 06532, Ankara, Turkey
    J Biochem Mol Biol 36:403-8. 2003
    ..No apparent effect was observed under the applied experimental conditions to facilitate or prevent damage through the ternary amino acid-Cr-DNA adduct formation or binary chromium-amino acid complex formation...
  31. ncbi Assembly of the complete eight-base artificial genetic helix, xDNA, and its interaction with the natural genetic system
    Jianmin Gao
    Department of Chemistry, Stanford University, Stanford, CA 94305-5080, USA
    Angew Chem Int Ed Engl 44:3118-22. 2005
  32. ncbi Thermal stability of triple helical DNAs containing 2'-deoxyinosine and 2'-deoxyxanthosine
    Yoshihito Ueno
    Department of Biomolecular Science, Faculty of Engineering, Gifu University, Laboratory of Molecular Biochemistry, Yanagido 501-1193, Gifu, Japan
    Bioorg Med Chem 12:6581-6. 2004
    ....
  33. ncbi Hybridization properties and enzymatic replication of oligonucleotides containing the photocleavable 7-nitroindole base analog
    Caroline Crey-Desbiolles
    LEDSS UMR 5616 CNRS, ICMG FR2607, , , France
    Nucleic Acids Res 33:1532-43. 2005
    ..All the hybridization and enzymatic data indicate that 7-nitroindole can be considered as a cleavable base analog, although not strictly fulfilling, like the 5-nitro isomer, all properties required for a universal base...
  34. ncbi 7-deaza-2'-deoxyxanthosine: nucleobase protection and base pairing of oligonucleotides
    Khalil I Shaikh
    Laboratorium fur Organische und Bioorganische Chemie, Institute für Chemie, Universitat Osnabruck, Osnabruck, Germany
    Nucleosides Nucleotides Nucleic Acids 26:737-41. 2007
    ..The base pairing of nucleosides 1 and 2 with the four canonical DNA constituents as well as with 3 within the 12-mer duplexes is studied...
  35. ncbi Eosinophil peroxidase catalyzes bromination of free nucleosides and double-stranded DNA
    Z Shen
    Department of Cell Biology, Cleveland Clinic Foundation, Cleveland, Ohio 44195, USA
    Biochemistry 40:2041-51. 2001
    ..Collectively, these results suggest that specific brominated DNA bases may serve as novel markers for monitoring oxidative damage of DNA and the nucleotide pool by brominating oxidants...
  36. ncbi Fluoro, alkylsulfanyl, and alkylsulfonyl leaving groups in suzuki cross-coupling reactions of purine 2'-deoxynucleosides and nucleosides
    Jiangqiong Liu
    Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602-5700, USA
    Org Lett 7:1149-51. 2005
    ....
  37. ncbi Azoles as Suzuki cross-coupling leaving groups: syntheses of 6-arylpurine 2'-deoxynucleosides and nucleosides from 6-(imidazol-1-yl)- and 6-(1,2,4-triazol-4-yl)purine derivatives
    Jiangqiong Liu
    Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602-5700, USA
    Org Lett 6:3421-3. 2004
    ....
  38. ncbi Molecular recognition in purine-rich internal loops: thermodynamic, structural, and dynamic consequences of purine for adenine substitutions in 5'(rGGCAAGCCU)2
    Brent M Znosko
    Department of Chemistry, University of Rochester, New York 14627-0216, USA
    Biochemistry 41:14978-87. 2002
    ..The results illustrate that both hydrogen-bonded and non-hydrogen-bonded amino groups play important roles in determining the thermodynamic, structural, and dynamic characteristics of purine rich internal loops...
  39. ncbi The efflux of purine nucleobases and nucleosides from the rat brain
    Aleksandra J Isakovic
    Institute of Biochemistry, School of Medicine, Belgrade, Yugoslavia
    Neurosci Lett 318:65-8. 2002
    ..moiety seemed to be important, since a significant difference in the efflux velocity between ribo- and deoxyribonucleosides was observed...
  40. ncbi Synthesis and properties of halogenated 7-deaza-2'-deoxyxanthosine and protected derivatives for oligonucleotide synthesis
    F Seela
    Laboratorium fur Organische und Bioorganische Chemie, Institut fur Chemie, Universitat Osnabruck, Osnabruck, Germany
    Nucleosides Nucleotides Nucleic Acids 22:1239-41. 2003
    ..The 7-bromo- (4a) and 7-iodo- (4b) derivatives of 7-deaza-2'-deoxyxanthosine (5) are prepared. Furthermore, the building blocks 6-8 of 7-deaza-2'-deoxyxanthosine (5) are synthesized and tested for their usage in oligonucleotide synthesis...
  41. ncbi Translesion synthesis past 2'-deoxyxanthosine, a nitric oxide-derived DNA adduct, by mammalian DNA polymerases
    Manabu Yasui
    Laboratory of Chemical Biology, Department of Pharmacological Sciences, State University of New York at Stony Brook, Stony Brook, NY 11794 8651, USA
    J Mol Biol 344:665-74. 2004
    ..Steady-state kinetic analyses supported the results obtained from the two-phase PAGE assay. dX is a miscoding lesion capable of preferentially generating G-->A mutations. The miscoding frequency varied depending on DNA polymerase used...
  42. ncbi Synthesis of novel 2'-deoxy type trans-3',4'-bridged nucleic acid
    Tomohisa Osaki
    Graduate School of Pharmaceutical Sciences, Osaka University, Osaka, Japan
    Nucleosides Nucleotides Nucleic Acids 26:1079-82. 2007
    ..The structure of trans-3',4'-BNA was confirmed by x-ray crystallographic analysis, indicating that the furanose ring has a typical S-type conformation with C(3')-exo puckering...
  43. ncbi Modular synthesis of 5-substituted thiophen-2-yl C-2'-deoxyribonucleosides
    Jan Bárta
    Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Gilead Sciences and IOCB Research Center, Prague 6, Czech Republic
    J Org Chem 73:3798-806. 2008
    ..The cross-coupling reactions with alkyl organometallics gave beta-(5-alkylthiophen-2-yl)-2-deoxyribonucleosides 4 and 7 in moderate yields accompanied by side-products of reduction...
  44. ncbi Synthesis of [5'-13C]ribonucleosides and 2'-deoxy[5'-13C]ribonucleosides
    Etsuko Kawashima
    Laboratory of Pharmaceutical Chemistry, School of Pharmacy, Tokyo University of Pharmacy and Life Science, Horinouchi, Hachioji, Tokyo, 192 0392 Japan
    J Org Chem 67:5142-51. 2002
    ..The obtained D-[5-13C]ribose derivative was converted into [5'-13C]ribonucleosides and subsequently into the corresponding 2'-deoxynucleosides...
  45. ncbi Synthesis of 2-deoxy-beta-D-ribose 1-phosphate, NMR comparison and its enzymatic activity for structural elucidation of synthetic alpha-isomer
    Hironori Komatsu
    Catalysis Science Laboratory, Mitsui Chemicals Inc, Sodegaura shi, Chiba, Japan
    Nucleosides Nucleotides Nucleic Acids 22:1685-6. 2003
    ..Natural purine nucleoside phosphorylase (PNPase) did not recognize 1 and gave no products such as alpha- or beta-deoxynucleosides...
  46. ncbi Differential reactivity of alpha and beta 2'-deoxyribonucleosides towards protonation and metalation
    Jens Muller
    University of Dortmund, Department of Chemistry, Otto Hahn Strasse 6, 44227 Dortmund, Germany
    J Inorg Biochem 101:470-6. 2007
    The reactivity of artificial 2'-deoxyribonucleosides, designed as nucleoside surrogates in metal-mediated base pairs, towards protonation and metalation has been shown to be dependent on the choice of the anomer...
  47. ncbi One-pot two-step enzymatic coupling of pyrimidine bases to 2-deoxy-D-ribose-5-phosphate. A new strategy in the synthesis of stable isotope labeled deoxynucleosides
    N Ouwerkerk
    Leiden University, Leiden Institute of Chemistry, Gorlaeus Laboratories, P.O. Box 9502, 2300 RA Leiden, The Netherlands
    J Org Chem 67:1480-9. 2002
    ....
  48. ncbi Identification of adducts formed in the reaction of alpha-acetoxy-N-nitrosopyrrolidine with deoxyribonucleosides and DNA
    Mingyao Wang
    The Cancer Center, University of Minnesota, Mayo Mail Code 806, 420 Delaware Street Southeast, Minneapolis, Minnesota 55455, USA
    Chem Res Toxicol 20:625-33. 2007
    ..Compound 3 was allowed to react with DNA. The DNA was enzymatically hydrolyzed to deoxyribonucleosides, and the products were analyzed by LC-ESI-MS and LC-ESI-MS/MS...
  49. ncbi X-ray crystallographic study of several 2'-deoxy-beta-D-ribonucleosides with 1-deazapurine-derived aglycones
    Jens Muller
    University of Dortmund, Department of Chemistry, Otto Hahn Strasse 6, D 44227 Dortmund, Germany
    Carbohydr Res 343:397-403. 2008
    ....
  50. ncbi De novo and salvage pathways of DNA synthesis in primary cultured neurall stem cells
    Kenichi Sato
    Department of Medical Genetics, Tohoku University School of Medicine, 1-1 Seiryo-machi, Sendai 980-8574, Japan
    Brain Res 1071:24-33. 2006
    ..The former pathway needs folic acid (FA) for nucleotide biosynthesis, while the latter requires deoxyribonucleosides (dNS). We examined the proliferative activity of sphere-forming cells in E14...
  51. ncbi DNA modification in chick heart and cerebrum
    K Kagawa
    Department of Biological Responses, Institute for Virus Research, Kyoto University, Shogoin Kawahara cho, Sakyo ku, Kyoto 606 8507, Japan
    Comp Biochem Physiol A Mol Integr Physiol 138:147-60. 2004
    ..We propose a model of the deoxynucleoside where a carbonyl residue exists between the base and the 2-deoxyribose moiety of the canonical deoxyribonucleoside...
  52. ncbi Design, synthesis, and immunostimulatory properties of CpG DNAs containing alkyl-linker substitutions: role of nucleosides in the flanking sequences
    Dong Yu
    Hybridon, Inc, 345 Vassar Street, Cambridge, Massachusetts 02139, USA
    J Med Chem 45:4540-8. 2002
    ..of the presence and absence of a nucleoside in the flanking sequences by replacing one or two natural deoxyribonucleosides at various positions with one or more alkyl- (C2-C12), branched alkyl- (glyceryl or aminobutyryl-..
  53. ncbi Interaction of DNA containing Fapy.dA or its C-nucleoside analogues with base excision repair enzymes. Implications for mutagenesis and enzyme inhibition
    Carissa J Wiederholt
    Department of Chemistry, Colorado State University, Fort Collins, CO 80523, USA
    Biochemistry 41:15838-44. 2002
    ..dA) opposite dC (K(D) = 7.1 +/- 1.5 nM). A duplex containing a beta-C-Fapy.dA:T base pair is an effective inhibitor (K(I) = 3.5 +/- 0.3 nM) of repair of Fapy.dA by Fpg, suggesting the C-nucleoside may have useful therapeutic properties...
  54. ncbi Requirement of nucleobase proximal to CpG dinucleotide for immunostimulatory activity of synthetic CpG DNA
    Dong Yu
    Hybridon, Inc, 345 Vassar Street, Cambridge, MA 02139, USA
    Bioorg Med Chem 11:459-64. 2003
    ..It was found that 'GXCGTT' motif has an intermediate immunostimulatory activity between those of 'GACGTT' and 'GTCGTT' in the mouse cells...
  55. ncbi Survival of DNA damage in yeast directly depends on increased dNTP levels allowed by relaxed feedback inhibition of ribonucleotide reductase
    Andrei Chabes
    Department of Medical Biochemistry and Biophysics, Umea University, SE 901 87 Umea, Sweden
    Cell 112:391-401. 2003
    ..We propose that increased survival and mutation rates result from more efficient translesion DNA synthesis at elevated dNTP concentrations...
  56. ncbi Fate of DNA replication fork encountering a single DNA lesion during oriC plasmid DNA replication in vitro
    Kumiko Higuchi
    Department of Molecular Biology, Graduate School of Biological Sciences, Nara Institute of Science and Technology, Takayama-cho 8916-5, Ikoma, Nara 630-0101, Japan
    Genes Cells 8:437-49. 2003
    ..CONCLUSIONS: The blocking DNA lesion affects DNA replication differently depending on which strand, leading or lagging, contains the lesion...
  57. ncbi Coordinated leading- and lagging-strand synthesis at the Escherichia coli DNA replication fork. I. Multiple effectors act to modulate Okazaki fragment size
    C A Wu
    Program in Molecular Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, New York 10021
    J Biol Chem 267:4030-44. 1992
    ....
  58. ncbi A balanced deoxyribonucleoside mixture increased the rate of DNA incorporation of 5-[125I]Iodo-2'-deoxyuridine in glioblastoma cells
    Y M Dupertuis
    Division of Nutrition, University Hospital of Geneva, 1211 Geneva 14, Switzerland
    Cancer Biother Radiopharm 18:7-16. 2003
    ..Thus, co-administration of a balanced deoxyribonucleoside mixture may improve the use of radiolabeled nucleotide analogs, such as [(125)I]IUdR, for the targeting of cancer cells...
  59. ncbi Advances in the stable isotope-mass spectrometric measurement of DNA synthesis and cell proliferation
    R A Neese
    Department of Nutritional Sciences, University of California at Berkeley, 309 Morgan Hall, Berkeley, California, 94720-3104, USA
    Anal Biochem 298:189-95. 2001
    ..Many applications of this approach can be envisioned...
  60. ncbi Structure and activity of specific inhibitors of thymidine phosphorylase to potentiate the function of antitumor 2'-deoxyribonucleosides
    M Fukushima
    Hanno Research Center, Taiho Pharmaceutical Co, Ltd, Saitama, Japan
    Biochem Pharmacol 59:1227-36. 2000
    ..In conclusion, TPI may contribute not only to inhibition of TPase-mediated biological functions but also to potentiation of the biological activity of various 2'-deoxyuridine and thymidine derivatives by combining with them...
  61. ncbi Regulation of mitosis onset and thymidine kinase activity during the cell cycle of Physarum polycephalum plasmodia: effect of hydroxyurea
    M Wright
    Laboratoire de Pharmacologie et de Toxicologie Fondamentales, Centre National de la Recherche Scientifique, Toulouse, France
    Exp Cell Res 179:263-72. 1988
    ..were suppressed when the action of hydroxyurea was prevented by the addition, to the medium, of the four deoxyribonucleosides. These observations show that (1)...
  62. ncbi The metabolism and molecular toxicology of chloroprene
    Tony Munter
    Syngenta Central Toxicology Laboratory, Alderley Park, Macclesfield SK10 4TJ, UK
    Chem Biol Interact 166:323-31. 2007
    ..Adducts in DNA were identified by comparison with those derived from individual deoxyribonucleosides. The metabolite (Z)-2-chlorobut-2-en-1-al (7) formed principally two adducts with 2'-deoxyadenosine which ..
  63. ncbi Unsaturated and carbocyclic nucleoside analogues: synthesis, antitumor, and antiviral activity
    S Phadtare
    Department of Chemistry, Michigan Cancer Foundation, Detroit 48201
    J Med Chem 34:421-9. 1991
    ..Cytotoxic effects of 4c, 6e, and 9d are not reversed with any of the four basic ribonucleosides or 2'-deoxyribonucleosides. Inhibitory activity of cytosine derivative 9c is reversed with uridine and 2'-deoxyuridine but not with ..
  64. ncbi Nucleoside transporter proteins of Saccharomyces cerevisiae. Demonstration of a transporter (FUI1) with high uridine selectivity in plasma membranes and a transporter (FUN26) with broad nucleoside selectivity in intracellular membranes
    M F Vickers
    Molecular Biology of Membranes Group and Membrane Transport Research Group, Departments of Biochemistry, Oncology, and Physiology, University of Alberta, Canada
    J Biol Chem 275:25931-8. 2000
    ..and was unaffected or inhibited only partially by high concentrations (1 mm) of a variety of ribo- and deoxyribonucleosides or nucleobases...
  65. 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
    ..The enzymes did not phosphorylate deoxyribonucleosides or purine ribonucleosides. UCK1 mRNA was detected as two isoforms of approximately 1.8 and approximately 2...
  66. ncbi Pharmacological basis for cladribine resistance in a human acute T lymphoblastic leukaemia cell line selected for resistance to etoposide
    K Lotfi
    Department of Medicine and Care, Clinical Pharmacology, Faculty of Health Sciences, Linkoping, Sweden
    Br J Haematol 113:339-46. 2001
    ..045)], as well as for other purine ribonucleosides and deoxyribonucleosides triphosphates in the resistant cells...
  67. ncbi Divergent effects of oxidatively induced modification to the C8 of 2'-deoxyadenosine on transcription factor binding: 8,5'(S)-cyclo-2'-deoxyadenosine inhibits the binding of multiple sequence specific transcription factors, while 8-oxo-2'-deoxyadenosine i
    Jessy Abraham
    Section on Molecular Neurobiology, Laboratory of Neurogenetics, National Institute on Alcohol Abuse and Alcoholism, Rockville, Maryland 20852, USA
    Environ Mol Mutagen 52:287-95. 2011
    ..Our previous work has focused on 8,5'-cyclopurine 2'-deoxyribonucleosides, a unique class of oxidatively induced DNA lesions that are specifically repaired by the NER pathway (see ..
  68. ncbi Identification of adducts formed by reaction of N-acetoxy-3,5-dimethylaniline with DNA
    Liang Cui
    Department of Biological Engineering, Massachusetts Institute of Technology, 56 753, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA
    Chem Res Toxicol 20:1730-6. 2007
    ..After enzymatic hydrolysis of DNA to individual 2'-deoxyribonucleosides, adduct profiles were determined using HPLC/MS...
  69. ncbi Inhibition of 3-hydroxy-3-methylglutaryl-CoA reductase activity and gene expression by dehydroepiandrosterone in preneoplastic liver nodules
    R M Pascale
    Istituto di Patologia Generale, , Italy
    Carcinogenesis 16:1537-42. 1995
    ..Administration of a mixture of 4 ribo- or deoxyribonucleosides of adenine, guanine, cytosine and uracil/thymine, prevents growth inhibition but not inhibition of CH ..
  70. ncbi Azide-tetrazole equilibrium of C-6 azidopurine nucleosides and their ligation reactions with alkynes
    Mahesh K Lakshman
    Department of Chemistry, The City College and The City University of New York, 160 Convent Avenue, New York, New York 10031, USA
    J Org Chem 75:2461-73. 2010
    Facile syntheses of C-6 azidopurine ribonucleosides and 2'-deoxyribonucleosides have been developed...
  71. ncbi Identification of adducts formed in the reactions of 5'-acetoxy-N'-nitrosonornicotine with deoxyadenosine, thymidine, and DNA
    Pramod Upadhyaya
    Masonic Cancer Center, University of Minnesota, MMC 806, 420 Delaware Street Southeast, Minneapolis, Minnesota 55455, USA
    Chem Res Toxicol 21:2164-71. 2008
    ..The reaction of 3 with calf thymus DNA was then investigated. The DNA was enzymatically hydrolyzed to deoxyribonucleosides, and the resulting mixture was treated with NaBH(3)CN and analyzed by LC-ESI-MS/MS-SRM...
  72. ncbi Analysis of glyoxal-induced DNA cross-links by capillary liquid chromatography nanospray ionization tandem mass spectrometry
    Hauh Jyun Candy Chen
    Department of Chemistry and Biochemistry, National Chung Cheng University, 168 University Road, Ming Hsiung, Chia Yi 62142, Taiwan
    Chem Res Toxicol 22:1334-41. 2009
    ..The cross-linked products of glyoxal with 2'-deoxyribonucleosides have been characterized as dG-gx-dC, dG-gx-dG, and dG-gx-dA...
  73. ncbi Mammalian S-phase checkpoint integrity is dependent on transformation status and purine deoxyribonucleosides
    C S Downes
    Department of Biomedical Science, University of Ulster, Coleraine BT52 1SA, UK
    J Cell Sci 113:1089-96. 2000
    ..Addition of deoxyribonucleosides shows that rapid S-phase condensation is suppressed by a novel checkpoint mechanism: purine (but not ..
  74. ncbi High excretion of etheno adducts in liver fluke-infected patients: protection by praziquantel against DNA damage
    Somkid Dechakhamphu
    Department of Biochemistry, Faculty of Medicine, Khon Kaen University, Khon Kaen, Thailand
    Cancer Epidemiol Biomarkers Prev 17:1658-64. 2008
    ..OV infection through oxidative/nitrative stress leads to increased urinary excretion of the etheno-bridged deoxyribonucleosides, reflecting high LPO-derived DNA damage in vivo...
  75. ncbi Genomic structure and chromosomal localization of the human deoxycytidine kinase gene
    J J Song
    Department of Internal Medicine, University of Michigan Medical Center, Ann Arbor 48109
    Proc Natl Acad Sci U S A 90:431-4. 1993
    ..7.1.74) is an enzyme that catalyzes phosphorylation of deoxyribonucleosides and a number of nucleoside analogs that are important in antiviral and cancer chemotherapy...
  76. ncbi Origin of pyrimidine deoxyribonucleotide pools in perfused rat heart: implications for 3'-azido-3'-deoxythymidine-dependent cardiotoxicity
    Gerald W Morris
    Indiana University School of Medicine South Bend, South Bend, IN 46617, U S A
    Biochem J 422:513-20. 2009
    ..dNTPs may be synthesized from salvage of deoxyribonucleosides or by reduction of ribonucleotides...
  77. ncbi Specific method for the determination of genomic DNA methylation by liquid chromatography-electrospray ionization tandem mass spectrometry
    Liguo Song
    Department of Cell Stress Biology, Roswell Park Cancer Institute, Buffalo, New York 14263, USA
    Anal Chem 77:504-10. 2005
    ..LC separation of 5-methyl-2'-deoxycytidine from the four deoxyribonucleosides, the four ribonucleosides, and 5-methyl-2'-cytidine, a RNA methylation product, has been achieved within 15 ..
  78. ncbi Modeling the dissociative hydrolysis of the natural DNA nucleosides
    Jennifer L Przybylski
    Department of Chemistry and Biochemistry, University of Lethbridge, 4401 University Drive, Lethbridge, Alberta T1K 3M4, Canada
    J Phys Chem B 114:1104-13. 2010
    Two-dimensional PCM-B3LYP/6-31+G(d) potential energy surfaces for the hydrolysis of the four natural 2'-deoxyribonucleosides (2'-deoxyadenosine, 2'-deoxyguanosine, 2'-deoxycytidine, and thymidine) are characterized using a model that ..
  79. ncbi Molecular dynamics studies of a hexameric purine nucleoside phosphorylase
    Fernando Berton Zanchi
    Universidade Federal de Rondonia, Porto Velho, RO, Brazil
    J Mol Model 16:543-50. 2010
    ..2.4.2.1) is an enzyme that catalyzes the cleavage of N-ribosidic bonds of the purine ribonucleosides and 2-deoxyribonucleosides in the presence of inorganic orthophosphate as a second substrate...
  80. ncbi Efficient syntheses of C(8)-aryl adducts of adenine and guanine formed by reaction of radical cation metabolites of carcinogenic polycyclic aromatic hydrocarbons with DNA
    Qing Dai
    The Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois 60637, USA
    J Org Chem 72:4856-63. 2007
    ..direct reaction of short-lived PAH radical cations (generated electrochemically or chemically) with 2'-deoxyribonucleosides or the corresponding purine bases...
  81. ncbi Synthesis and evaluation of 6-methylene-bridged uracil derivatives. Part 1: discovery of novel orally active inhibitors of human thymidine phosphorylase
    Shingo Yano
    Hanno Research Center, Taiho Pharmaceutical Co, Ltd, 1 27 Misugidai, Hanno shi, Saitama 357 8527, Japan
    Bioorg Med Chem 12:3431-41. 2004
    ..To enhance the in vivo antitumor activity of fluorinated pyrimidine 2'-deoxyribonucleosides such as 2'-deoxy-5-(trifluoromethyl)uridine (F(3)dThd), a potent TP inhibitor preventing their degradation ..
  82. ncbi Exogenous adenosine reduces the mitochondrial membrane potential of murine oocytes during the latter half of in vitro maturation and pronuclear formation following chemical activation
    Wataru Fujii
    Department of Animal Science, Graduate School of Natural Science and Technology, Okayama University, Okayama, Japan
    J Reprod Dev 55:187-93. 2009
    ..4 h after eCG-hCG treatment and cultured in maturation medium with or without nucleosides (4 ribo- and 4 deoxyribonucleosides) for 12 h...
  83. ncbi Measurement of mitochondrial DNA synthesis in vivo using a stable isotope-mass spectrometric technique
    Michelle L Collins
    Graduate Group in Molecular and Biochemical Nutrition, University of California at Berkeley, Berkeley, CA 94720, USA
    J Appl Physiol 94:2203-11. 2003
    ..were isolated from cardiac and hindlimb muscle, and mtDNA was isolated and enzymatically hydrolyzed to deoxyribonucleosides. PCR confirmed the absence of nuclear DNA contamination...
  84. ncbi Inhibitors of the enzyme purine nucleoside phosphorylase as potential therapy for psoriasis
    P E Morris
    BioCryst Pharmaceuticals, Inc, 2190 Parkway Lake Drive, Birmingham, AL 35244, USA
    Curr Pharm Des 6:943-59. 2000
    ..is responsible for the catalysis of the reversible phosphorolytic cleavage of purine ribonucleosides and 2'-deoxyribonucleosides. The pivotal role of PNP in T-cell proliferation has been demonstrated in patients with inherited PNP ..
  85. ncbi Allosteric regulation of Trypanosoma brucei ribonucleotide reductase studied in vitro and in vivo
    A Hofer
    Department of Medical Biochemistry and Biophysics, Umea University, S 901 87 Umea, Sweden
    J Biol Chem 273:34098-104. 1998
    ..Pool measurements of NDPs, NTPs, and dNTPs in the cultivated bloodstream form of trypanosomes exposed to deoxyribonucleosides or inhibited by hydroxyurea confirmed our in vitro allosteric regulation model of ribonucleotide reductase...
  86. ncbi Measurement of mouse vascular smooth muscle and atheroma cell proliferation by 2H2O incorporation into DNA
    Alice Chu
    Department of Nutritional Sciences and Toxicology, University of California, Berkeley, CA 94720 7360, USA
    Am J Physiol Cell Physiol 291:C1014-21. 2006
    ..DNA from the intimal-medial layer of the aorta was extracted and hydrolyzed to deoxyribonucleosides. Purified deoxyadenosine was derivatized to pentane tetraacetate for analysis of (2)H enrichment by gas ..
  87. ncbi Screening the structural and functional properties of bicyclo-DNA: bc(ox)-DNA
    Samuel Luisier
    Department of Chemistry and Biochemistry, University of Bern, Switzerland
    Chembiochem 9:2244-53. 2008
    ..benzyloxime substituent on the carbocyclic ring and show improved conformational similarity to 2'-deoxyribonucleosides as shown by their X-ray structures...
  88. ncbi Cloning and characterization of the multisubstrate deoxyribonucleoside kinase of Drosophila melanogaster
    M Johansson
    Division of Clinical Virology, Karolinska Institute, Huddinge University Hospital, S 141 86 Stockholm, Sweden
    J Biol Chem 274:23814-9. 1999
    A Drosophila melanogaster deoxyribonucleoside kinase (Dm-dNK) was reported to phosphorylate all four natural deoxyribonucleosides as well as several nucleoside analogs (Munch-Petersen, B., Piskur, J., and Sondergaard, L. (1998) J. Biol...
  89. ncbi Purine nucleoside phosphorylase inhibition as a novel therapeutic approach for B-cell lymphoid malignancies
    Richard R Furman
    CLL Research Center, Weill Cornell Medical Center, New York, NY 10021, USA
    Semin Oncol 34:S29-34. 2007
    Purine nucleoside phosphorylase (PNP) catalyzes the reversible phosphorolysis of ribonucleosides and 2'-deoxyribonucleosides to their respective bases...
  90. ncbi Saturation kinetics, specificity and NBMPR sensitivity of thymidine entry into the central nervous system
    S A Thomas
    Sherrington School of Physiology, UMDS St Thomas Hospital Campus, University of London, UK
    Brain Res 760:59-67. 1997
    ..indicated that the transport system identified for [3H]thymidine can also transport other pyrimidine deoxyribonucleosides (deoxycytidine) and pyrimidine ribonucleosides (uridine) and is partially NBMPR-sensitive...
  91. ncbi The Bacillus subtilis nrdEF genes, encoding a class Ib ribonucleotide reductase, are essential for aerobic and anaerobic growth
    Elisabeth Härtig
    Institute of Microbiology, Technical University of Braunschweig, D 38106 Braunschweig, Germany
    Appl Environ Microbiol 72:5260-5. 2006
    ..Recently, it was proposed that externally supplied deoxyribonucleosides or DNA is required for the growth of Bacillus subtilis under strict anaerobic conditions (M. J. Folmsbee, M...
  92. ncbi Synthesis, cytostatic and anti-HCV activity of 6-(N-substituted aminomethyl)-, 6-(O-substituted hydroxymethyl)- and 6-(S-substituted sulfanylmethyl)purine nucleosides
    Peter Silhár
    Institute of Organic Chemistry and Biochemistry, v v i, Academy of Sciences of the Czech Republic, Gilead Sciences and IOCB Research Center, Flemingovo nam 2, CZ 16610 Prague 6, Czech Republic
    Bioorg Med Chem 16:2329-66. 2008
    ..hydroxymethyl)- and 6-(S-substituted sulfanylmethyl)purine nucleosides (55 examples of both ribo- and 2'-deoxyribonucleosides), aimed at identifying novel homologues of natural nucleosides, was developed...
  93. ncbi Photo-induced hole transfer from base to sugar in DNA: relationship to primary radiation damage
    Amitava Adhikary
    Department of Chemistry, Oakland University, Rochester, Michigan 38309, USA
    Radiat Res 165:479-84. 2006
    ..results in high yields of deoxyribose sugar radicals in DNA, guanine deoxyribonucleosides and deoxyribonucleotides. Photo-excitation of G...
  94. ncbi Syntheses of aliphatic polycarbonates from 2'-deoxyribonucleosides
    Masato Suzuki
    Department of Materials Science and Engineering, Nagoya Institute of Technology, Nagoya, Japan
    Biomacromolecules 12:1449-59. 2011
    ..Employing the well-designed monomer suppressed the carbonate exchange reaction to produce poly(thymidine) with the almost regular 3'-5'carbonate linkages...
  95. ncbi The effect of nitric oxide on vaccinia virus-encoded ribonucleotide reductase
    Yuzo Fujikura
    Institute of Pathological Physiology, 1st Medical Faculty, Charles University, Prague, Czech Republic
    Nitric Oxide 20:114-21. 2009
    ..This inhibition is partially reversed by addition of deoxyribonucleosides, suggesting that NO or NO-related species inhibit viral ribonucleotide reductase (RR)...
  96. ncbi Human deoxycytidine kinase as a deoxyribonucleoside phosphorylase
    Elena Usova
    Department of Molecular Biosciences, Section of Veterinary Medical Biochemistry, Swedish University of Agricultural Sciences, Biomedical Center, Box 575, S 751 23 Uppsala, Sweden
    J Mol Biol 344:1347-58. 2004
    ..The ability of dCK to degrade 2'-deoxyribonucleosides to free nucleobases and 2-deoxy-alpha-d-ribofuranose-1-phosphate was demonstrated by 1H-31P correlation ..
  97. ncbi The Drosophila melanogaster UMP-CMP kinase cDNA encodes an N-terminal mitochondrial import signal
    Sophie Curbo
    Division of Clinical Virology F68, Karolinska Institute, Huddinge University Hospital, S 14186 Stockholm, Sweden
    Biochem Biophys Res Commun 311:440-5. 2003
    ..cells express a multi-substrate deoxyribonucleoside kinase that phosphorylates both purine and pyrimidine deoxyribonucleosides. The subsequent phosphorylation step is catalyzed by nucleoside monophosphate kinases...
  98. ncbi Cloning and expression of human deoxycytidine kinase cDNA
    E G Chottiner
    Department of Internal Medicine, University of Michigan 48109
    Proc Natl Acad Sci U S A 88:1531-5. 1991
    Deoxycytidine (dCyd) kinase is required for the phosphorylation of several deoxyribonucleosides and certain nucleoside analogs widely employed as antiviral and chemotherapeutic agents...
  99. ncbi Crystal structures of nucleoside 2-deoxyribosyltransferase in native and ligand-bound forms reveal architecture of the active site
    S R Armstrong
    Section of Biochemistry, Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA
    Structure 4:97-107. 1996
    ..in the salvage pathway of nucleotide metabolism in certain organisms, catalyzing the cleavage of beta-2'-deoxyribonucleosides and the subsequent transfer of the deoxyribosyl moiety to an acceptor purine or pyrimidine base...
  100. ncbi 2-Phenanthrenyl-DNA: synthesis, pairing, and fluorescence properties
    Nikolay A Grigorenko
    Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, 3012 Bern, Switzerland
    Chemistry 15:639-45. 2009
    Three 2'-phenanthrenyl-C-deoxyribonucleosides with donor (phenNH(2)), acceptor (phenNO(2)), or no (phenH) substitution on the phenanthrenyl core were synthesized and incorporated into oligodeoxyribonucleotides...
  101. ncbi Polydeoxyribonucleotide promotes cyclobutane pyrimidine dimer repair in UVB-exposed dermal fibroblasts
    Silvana Belletti
    Department of Experimental Medicine, University of Parma, Parma, Italy
    Photodermatol Photoimmunol Photomed 23:242-9. 2007
    ..Several studies have suggested that treatment with deoxyribonucleosides can protect some cell types from DNA damage...

Research Grants81

  1. ANTIHIV OLIGONUCLEOTIDES REACTIVE FUNCTIONAL GROUPS
    Paul Miller; Fiscal Year: 2000
    ..Oligomers composed of 2'-deoxyribonucleosides will be designed to form triplexes with purine tracts in HIV proviral DNA...
  2. ADIPOCYTE TURNOVER AND METABOLISM IN HIV-1 LIPOATROPHY
    Marc Hellerstein; Fiscal Year: 2003
    ....
  3. RADIATION DAMAGE TO DNA--EFFECTS OF MODIFIERS AND LET
    Michael Sevilla; Fiscal Year: 2003
    ..Product analyses will be performed jointly with Wake Forest University. Results of these analyses will serve to test and further elucidate mechanisms proposed by ESR experiments. ..
  4. MOLECULAR EFFECTORS OF ENZYMATIC SYNTHESIS OF DNA
    MUKUND MODAK; Fiscal Year: 2003
    ..The molecular mechanism and functional anatomy of DNA polymerase clarified in this manner will lead to a better understanding of DNA replication, DNA repair and mutagenic effects of chemicals and carcinogenesis. ..
  5. Response to and signals of caloric restriction and intermittent feeding regimens
    MARC KOPEL HELLERSTEIN; Fiscal Year: 2010
    ....
  6. Chemical Approaches to DNA Topoisomerase Inhibition and Function
    James T Stivers; Fiscal Year: 2010
    ..These methods will provide new profiling tools for topoisomerase activity in clinical samples. ..
  7. Mechanisms for Radiation Damage to DNA: LET Effects
    Michael Sevilla; Fiscal Year: 2007
    ..We believe this focused, collaborative effort will allow us to establish new understandings of fundamental radiation processes for biomedical research. ..
  8. Mechanistic Biology of Topoisomerase 1B
    JAMES STIVERS; Fiscal Year: 2006
    ..We anticipate these measurements will guide our efforts to design inhibitors of Topo I and to engineer the enzyme to perform other useful DNA transformations. ..
  9. MECHANISMS AND TRANSITION STATES FOR DNA GLYCOSYLASES
    JAMES STIVERS; Fiscal Year: 2005
    ..Such inhibitors or activators may find use as anti-viral or anti-cancer agents. ..
  10. Uracil Damage Recognition by Uracil DNA Glyocosylase
    JAMES STIVERS; Fiscal Year: 2009
    ..We will design cell permeable oligonucleotide inhibitors of hUDG using already established mechanistic principles of extrahelical base recognition and transition state mimicry. ..
  11. Uracil Damage Recognition by Uracil DNA Glycosylase
    James T Stivers; Fiscal Year: 2010
    ..The characterization of the molecular interactions in this pathway provides the basis for identifying new targets for biomedical intervention in the immune response, cancer therapy and viral pathogenesis. ..
  12. Mechanistic Biology of Topoisomerase 1B
    JAMES STIVERS; Fiscal Year: 2007
    ..We anticipate these measurements will guide our efforts to design inhibitors of Topo I and to engineer the enzyme to perform other useful DNA transformations. ..
  13. Chemical Approaches to DNA Topoisomerase Inhibition and Function
    JAMES STIVERS; Fiscal Year: 2009
    ..These methods will provide new profiling tools for topoisomerase activity in clinical samples. ..
  14. Uracil Damage Recognition by Uracil DNA Glyocosylase
    JAMES STIVERS; Fiscal Year: 2009
    ..We will design cell permeable oligonucleotide inhibitors of hUDG using already established mechanistic principles of extrahelical base recognition and transition state mimicry. ..
  15. MECHANISMS AND TRANSITION STATES FOR DNA GLYCOSYLASES
    JAMES STIVERS; Fiscal Year: 2002
    ..It is anticipated that this work will provide a basic understanding of the factors that contribute to stabilization of the enzymatic transition-state for hydrolysis of pyrimidine bases from DNA. ..
  16. High Throughput Assay:Topoisomerase Enzyme Targets (RMI)
    JAMES STIVERS; Fiscal Year: 2005
    ..The utility of the assay has been validated, by screening a 2000 member small molecule library from which several novel lead compounds have been identified that specifically target a poxvirus family topoisomerase. ..
  17. MOLECULAR EFFECTORS OF ENZYMATIC SYNTHESIS OF DNA
    MUKUND MODAK; Fiscal Year: 1999
    ....
  18. Studies of DNA Pol I and Pol E2 of M. tuberculosis
    MUKUND MODAK; Fiscal Year: 2007
    ....
  19. MOLECULAR EFFECTORS OF ENZYMATIC SYNTHESIS OF DNA
    MUKUND MODAK; Fiscal Year: 1993
    ..In addition, newer antimicrobial and antiviral agents can be synthesized which will target specific structural domains of the polymerase of the infectious agents...