TIGER

Other Resources: 13 results
Molecular Models of DNA  William F. Coleman
The featured molecules this month come from the paper by David T. Crouse on the X-ray determination of the structure of DNA. Given that most students are aware of the double helix, it seems appropriate to back up a little and examine the components that give rise to this structure. Accordingly, the molecule collection includes: Purine and pyrimidine, structural precursors of the four bases found in DNA: cytosine (C), thymine (T), adenine (A), and guanine (G) The four corresponding deoxyribonucleosides The four deoxyribonucleotides (the nucleoside monophosphates) A two-base-pair fragment showing the AT and GC hydrogen-bonded complements Several small 24-base-pair DNA fragments polyAT, polyGC, and a random array of bases. The DNA fragments provide a good opportunity to have students explore features of the Jmol and Chime menus. Using the Jmol menu as an example (right-click on the structure to bring up the menu) students can use the measuring tools to get an idea of the length of a complete turn in the DNA, the relative widths of the major and minor grooves, and the diameter of the helix. They can use the coloring schemes to detect the various base pair combinations, and learn to read the code for the random sequence. In Chime they can use the Shapely coloring scheme for this same purpose. Exploring other aspects of the menu will allow students to present the molecules in the various forms, including ribbon and cartoon views. In RNA, thymine is replaced by uracil, and the sugar moiety has an axial hydroxyl group on the carbon atom adjacent to the base binding site (the 2? carbon). The structures of uracil and of uridine monophosphate are included in the molecule collection. Students can use the Web to download and examine more complex DNAs using a site such as the Nucleic Acid Database at Rutgers University.
Nucleic Acids / DNA / RNA
DNA Replication  Ed Vitz, John W. Moore
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Nucleic Acids / DNA / RNA
ChemPaths 104 M Feb 7  John W. Moore
Today in Chem 104: Lecture: Biochemistry: DNA; Importance of Molecular Structure * Reading: Kotz: Chemistry of Life (pp. 503-510); Moore:Ch. 3: Sec. 11;Ch. 12: Sec. 7 * Moodle Tutorials o DNA 1 (including debriefing) o DNA 2 (including debriefing) o DNA 1 and 2 Quiz due TODAY 11:55pm * Homework #4 due F Feb 11, 11:55 PM
Nucleic Acids / DNA / RNA
ChemPaths 104 F Feb 4  John W. Moore
Today in Chem 104: * Lecture: Problem-Solving Session (email questions or topics to Prof. Moore jwmoore@chem.wisc.edu by 9am today) * No reading assigned for today. * Homework #3 due by 11:55 pm Today! * Moodle Tutorials o DNA 1 (including debriefing) o DNA 2 (including debriefing) o DNA 1 and 2 Quiz due M Feb 7, 11:55pm
Nucleic Acids / DNA / RNA
Molecular Models of DAPI  William F. Coleman
This month's Featured Molecule is DAPI (4′,6-diamidino-2-phenylindole), from the paper by Eamonn F. Healy (1). The utility of DAPI is a consequence of its being a minor-groove binder to DNA. A crystal structure of DAPI binding to the minor groove of a synthetic DNA has been determined, and the structure file made available through the RCSB Protein Data Bank (2, 3). That structure is also included in the Featured Molecules Collection, with the water molecules removed for the sake of clarity. For many students this may be their first encounter with the binding of small molecules to DNA. Another example of such binding is the intercalation of the antibiotic actinomycin into DNA. The Department of Biology at the University of Hamburg maintains an excellent Web site showing both crystal and NMR structures of actinomycin intercalation (4). Observant students will also note in the structure of DAPI a theme that has appeared several times in our Featured Molecules, and that is the non-planarity of adjacent delocalized ring systems. In DAPI, it is a five-membered ring adjacent to a six-membered ring, and the observed departure from planarity is less than that in biphenyl. Students might be asked to explain that difference.
Nucleic Acids / DNA / RNA
Information Storage in Sports, Physiology & Health  Tim Wendorff
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Nucleic Acids / DNA / RNA
Nucleic Acids  Ed Vitz, John W. Moore
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Nucleic Acids / DNA / RNA
Nucleic Acid Structure  Ed Vitz, John W. Moore
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Nucleic Acids / DNA / RNA
Information Storage  Ed Vitz, John W. Moore
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Nucleic Acids / DNA / RNA
The Double Helix  Ed Vitz, John W. Moore
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Nucleic Acids / DNA / RNA
Transcription and Translation  Ed Vitz, John W. Moore
A section of ChemPrime, the Chemical Educations Digital Library's free General Chemistry textbook.
Biosynthesis |
Nucleic Acids / DNA / RNA
Biomolecules (Netorials)  Rachel Bain, Mithra Biekmohamadi, Liana Lamont, Mike Miller, Rebecca Ottosen, John Todd, and David Shaw
Biomolecules: this is a resource in the collection "Netorials". This set of modules will provide you with a descriptive overview of the four major classes of biomolecules found in all living organisms: carbohydrates, lipids, proteins, and nucleic acids. The Netorials cover selected topics in first-year chemistry including: Chemical Reactions, Stoichiometry, Thermodynamics, Intermolecular Forces, Acids & Bases, Biomolecules, and Electrochemistry.
Bioorganic Chemistry |
Carbohydrates |
Nucleic Acids / DNA / RNA |
Lipids |
Proteins / Peptides
Netorials  
The Netorials cover selected topics in first-year chemistry including: Chemical Reactions, Stoichiometry, Intermolecular Forces, Acids & Bases, Biomolecules, and Electrochemistry.
Acids / Bases |
Stoichiometry |
Proteins / Peptides |
Enzymes |
Carbohydrates |
Nucleic Acids / DNA / RNA |
Lipids |
Oxidation / Reduction |
Noncovalent Interactions