TIGER

Journal Articles: 16 results
UV Thermal Melting Curves of tRNAPhe in the Presence of Ligands  Sarah R. Kirk, Todd P. Silverstein, and Karen L. McFarlane Holman
This article describes a set of experiments in which the thermal unfolding of tRNAPhe is studied with UVĀvis spectrophotometry. Students examine the effects of magnesium and small molecule ligands on tRNAPhe conformational stability and draw conclusions about tRNAPhe ligand binding modes and the impact of various types of ligands on tRNA structure.
Kirk, Sarah R.; Silverstein, Todd P.; Holman, Karen L. McFarlane. J. Chem. Educ. 2008, 85, 674.
Bioinorganic Chemistry |
Bioorganic Chemistry |
Biophysical Chemistry |
Thermal Analysis |
UV-Vis Spectroscopy |
Nucleic Acids / DNA / RNA
Probing Changes in the Conformation of tRNAPhe: An Integrated Biochemistry Laboratory Course  Sarah R. Kirk, Todd P. Silverstein, Karen L. McFarlane Holman, and Buck L. H. Taylor
This guided-inquiry, laboratory course focuses on the biomolecule tRNAPhe and combines biochemistry with elements of bioorganic and bioinorganic chemistry. Throughout the semester students work collaboratively to study tRNAPhe structure and the influence of ligand binding under a variety of conditions using several analytical techniques.
Kirk, Sarah R.; Silverstein, Todd P.; Holman, Karen L. McFarlane; Taylor, Buck L. H. J. Chem. Educ. 2008, 85, 666.
Bioinorganic Chemistry |
Bioorganic Chemistry |
Biophysical Chemistry |
Electrophoresis |
Fluorescence Spectroscopy |
UV-Vis Spectroscopy |
Student-Centered Learning |
Nucleic Acids / DNA / RNA
A 3D Model of Double-Helical DNA Showing Variable Chemical Details  Susan G. Cady
A 3D double-helical DNA model, made by placing beads on a wire and stringing beads through holes in plastic canvas, is described. Suggestions are given to enhance the basic helical frame to show the shapes and sizes of the nitrogenous base rings, 3' and 5' chain termini, and base pair hydrogen bonding. Students can incorporate random or real gene sequence data into their models.
Cady, Susan G. J. Chem. Educ. 2005, 82, 79.
Biotechnology |
Molecular Properties / Structure |
Molecular Modeling |
Nucleic Acids / DNA / RNA
Does Active Learning through an Antisense Jigsaw Make Sense?  Mahadevan Seetharaman and Karin Musier-Forsyth
Three journal articles on nucleic acid antisense modification strategies were assigned to 12 students as part of an active learning "jigsaw" exercise for a graduate-level chemistry course on nucleic acids. The effectiveness of this active learning strategy and its applicability to other topics are discussed in this article.
Seetharaman, Mahadevan; Musier-Forsyth, Karin. J. Chem. Educ. 2003, 80, 1404.
Learning Theories |
Nucleic Acids / DNA / RNA
Analysis of DAPI and SYBR Green I as Alternatives to Ethidium Bromide for Nucleic Acid Staining in Agarose Gel Electrophoresis  Kevin M. Bourzac, Lori J. LaVine, and Margaret S. Rice
DAPI and SYBR Green I are good staining alternatives to ethidium bromide in that they have similar sensitivity and are both easy to use. SYBR Green I is more expensive than EB or DAPI; however, the limited safety data suggest that SYBR Green I is the safest stain.
Bourzac, Kevin M.; LaVine, Lori J.; Rice, Margaret S. J. Chem. Educ. 2003, 80, 1292.
Dyes / Pigments |
Electrophoresis |
Nucleic Acids / DNA / RNA
Nucleic Acids: Structures, Properties, and Functions (by Victor A. Bloomfield, Donald M. Crothers, and Ignacio Tinoco Jr.; with contributions from John E. Hearst, David E. Wemmer, Peter A. Kollman, and Douglas H. Turner)  John H. Shibata
A single volume that contains a comprehensive and detailed account of the structures and physical properties of nucleic acids.
Shibata, John H. J. Chem. Educ. 2001, 78, 314.
Molecular Biology |
Molecular Properties / Structure |
Nucleic Acids / DNA / RNA
Chromatin Isolation and DNA Sequence Analysis in Large Undergraduate Laboratory Sections  Ann E. Hagerman
One exercise is a simple laboratory experiment in which chromatin is isolated from chicken liver and is resolved into histone proteins and DNA by ion-exchange chromatography. The other is a series of computer simulations that introduce DNA sequencing, mapping, and sequence analysis to the students.
Hagerman, Ann E. J. Chem. Educ. 1999, 76, 1426.
Biotechnology |
Proteins / Peptides |
Nucleic Acids / DNA / RNA
Monitoring Hammerhead Ribozyme-Catalyzed Cleavage with a Fluorescein-Labeled Substrate: Effects of Magnesium Ions and Antibiotic Inhibitors. A Biochemistry Laboratory: Part 2  Christine S. Chow, Smita Somne, and Beatriz Llano-Sotelo
An experiment is presented that demonstrates current techniques in modern RNA research and introduces a method for nonradioactive monitoring of RNA reactions. The laboratory involves the study of hammerhead ribozyme activity and the influence of metal ions and antibiotics on these important RNA-based reactions.
Chow, Christine S.; Somne, Smita; Sotelo, Beatriz Llano. J. Chem. Educ. 1999, 76, 651.
Bioorganic Chemistry |
Electrophoresis |
Enzymes |
Bioinorganic Chemistry |
Nucleic Acids / DNA / RNA
Synthesis and Purification of a Hammerhead Ribozyme and a Fluorescein-Labeled RNA Substrate. A Biochemistry Laboratory: Part 1  Christine S. Chow and Smita Somne
The applications of in vitro transcription and chemical synthesis of RNA are discussed. This laboratory describes the in vitro synthesis of a 38-nucleotide hammerhead ribozyme and the synthesis of a 17-nucleotide fluorescein-labeled RNA substrate by using standard phosphoramidite methodologies, two widely used methods in modern RNA research.
Chow, Christine S.; Somne, Smita. J. Chem. Educ. 1999, 76, 648.
Bioorganic Chemistry |
Electrophoresis |
Enzymes |
Bioinorganic Chemistry |
Nucleic Acids / DNA / RNA
Antitumor active drugs as intercalators of deoxyribonucleic acid: Molecular models of intercalation complexes  Pindur, Ulf; Haber, Manfred; Sattler, Kristin
Structure-dependant models of intercalation with DNA and base-pair oligonucleotides are presented at the molecular level for some cytostatic agents. The application of these procedures is interesting to teacher and student in that they provide rational foundation for the development of new intercalating drugs.
Pindur, Ulf; Haber, Manfred; Sattler, Kristin J. Chem. Educ. 1993, 70, 263.
Molecular Biology |
Applications of Chemistry |
Enrichment / Review Materials
An Attack on the AIDS Virus: Inhibition of the HIV-1 Protease. New Drug Development Based on the Structure and Activity of the Protease and its Role in the Replication and Maturation of the Virus  Volker, Eugene J.
Article shows how research into the biochemistry of HIV may lead to a method for controlling its growth and maturation. This research illustrates some basic enzyme chemistry and holds student appeal due to the tie into current affairs.
Volker, Eugene J. J. Chem. Educ. 1993, 70, 3.
Bioorganic Chemistry |
Proteins / Peptides |
Medicinal Chemistry |
Molecular Biology
Nucleic acid structure and synthesis (Parish, J.H.)  Parker, Keith K.
A review of a software program designed to introduce current understanding of DNA and RNA structure and the dynamic processes of replication and transcription.
Parker, Keith K. J. Chem. Educ. 1988, 65, A298.
Molecular Biology
Supercoiled DNA   Scovell, William M.
This article reviews recent advances in our knowledge of Supercoiled DNA such as topology, energetic, and physicochemical characteristics as well as the biological implications of this tertiary structure.
Scovell, William M. J. Chem. Educ. 1986, 63, 562.
Molecular Biology
The effects of ionizing radiation on mammalian cells  Biaglow, John E.
In this review, the author is concerned with the effects of radiation on dividing cells and the factors that influence it.
Biaglow, John E. J. Chem. Educ. 1981, 58, 144.
Medicinal Chemistry |
Free Radicals |
Nuclear / Radiochemistry |
Molecular Biology |
Applications of Chemistry
Biopolymer models of nucleic acids  Barrett, Edward J.
Space-filling models used to represent amino acids and the structure of DNA and RNA.
Barrett, Edward J. J. Chem. Educ. 1979, 56, 168.
Molecular Biology |
Molecular Modeling |
Molecular Properties / Structure
Macromolecular solutions as an integral part of beginning physical chemistry  Krause, Sonja
The author discusses macromolecules in solution and to some of the topics from beginning courses in physical chemistry into which this subject should be integrated. The examples given here are not exhaustive, but they can be easily integrated into beginning courses.
Krause, Sonja J. Chem. Educ. 1978, 55, 174.
Solutions / Solvents |
Aqueous Solution Chemistry |
Synthesis |
Biophysical Chemistry |
Molecular Biology