BBMB404Chapter4

BBMB404Chapter4 - Chapter 4: Nucleic Acids 1. Serve as...

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Unformatted text preview: Chapter 4: Nucleic Acids 1. Serve as information carriers 2. Basis for energy storage (ATP) 3. Basis for enzymatic co-factors 4. Basis for signaling molecules 5. Mediate protein synthesis 6. Pre-biotic RNA world? 7. Used in medicine (e.g. RNAi) COMMON THEMES The SAME forces will be at work all year in BBMB 404: • HYDROPHOBIC EFFECT • H-BONDING • ELECTROSTATIC INTERACTIONS • VAN DER WAALS • …along with COVALENT BONDS Nucleotide structure and nomenclature The nucleotides found in vivo are derivatives of the heterocyclic, “basic” compounds purine and pyrimidine Sugars in nucleic acids Glycosidic Linkage A nucleo side 1’ 5’ esterification 5’ 9’ RNA: adenosine, guanosine, cytidine, uridine DNA: deoxyadenosine, deoxyguanosine, deoxycytidine, thymidine AIDS treatment uses nucleoside analogs. ~ 100 fold greater affinity for reverse transcriptase than DNA polymerase A nucleo tide : ATP 5’ ATP What would 3’ dGMP look like? Watson-Crick model of ds-(B form) DNA 1. Antiparallel coil around a common axis 2. Sugar-phosphate on the outside, bases on the inside 3. Bases are perpendicular to the sugar-phosphate axis 4. Translation is 3.4 Å per base, repeats every 10 bases (or 34 Å). DNA • Anti-parallel strands • Sugar-phosphate backbone, h-bonded bases • Major groove vs. minor groove • 10 bases/turn • Diameter is 20Å • Stabilizing forces 5’ 3’ 5’ 3’ 5’ 3’ The DNA double helix is antiparallel Phosphodiester bond (across the sugar) • DNA • Know this structure! Phosphodieste r linkage DNA • Anti-parallel strands • Sugar-phosphate backbone, H- bonded bases • Major groove vs. minor groove • 10 bases/turn • Diameter is 20Å • Stabilizing forces 6’ 1’ 3’ 4’ 6’ 1’ 2’ 3’ 4’ 2’ DNA • Anti-parallel strands • Sugar-phosphate backbone, h-bonded bases • Major groove vs. minor groove • 10 bases/turn • Diameter is 20Å • Stabilizing forces The reason for different grooves…. DNA • Anti-parallel strands • Sugar-phosphate backbone, h-bonded bases • Major groove vs. minor groove • 10 bases/turn • Diameter is 20Å • Stabilizing forces How big is B form DNA? DNA • Anti-parallel strands • Sugar-phosphate backbone, h-bonded bases • Major groove vs. minor groove • 10 bases/turn • Diameter is 20Å • Stabilizing forces STABILIZING FORCES...
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This note was uploaded on 09/25/2011 for the course BIOL 404 taught by Professor Dr.hargrove during the Spring '11 term at Iowa State.

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BBMB404Chapter4 - Chapter 4: Nucleic Acids 1. Serve as...

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