LECTURE 1 Introduction to the Course- Nucleic Acid Structure

LECTURE 1 Introduction to the Course- Nucleic Acid...

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MCB 110:Biochemistry of the Central Dogma of MB Prof. Nogales Part 3. M embranes, protein secretion, trafficking and signaling Part 2. RNA & protein synthesis. Prof. Zhou Part 1. DNA replication, repair and genomics (Prof. Alber)
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MCB 110:Biochemistry of the Central Dogma of MB Part 2. RNA & protein synthesis. Prof. Zhou Prof. Nogales Part 3. M embranes, protein secretion, trafficking and signaling Part 1. DNA replication, repair and genomics (Prof. Alber)
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DNA structure summary 1 1. W & C (1953) modeled average DNA (independent of sequence) as an: anti-parallel, right-handed, double helix with H-bonded base pairs on the inside and the sugar-phosphate backbone on the outside . 1. Each chain runs 5’ to 3’ (by convention). Profound implications: complementary strands suggested mechanisms of replication, heredity and recognition. M issing Structural variation in DNA as a function of sequence Tools to manipulate and analyze DNA (basis for biotechnology, sequencing, genome analysis)
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DNA schematic (no chemistry) 3. Duplex strands are antiparallel and complementary. Backbone outside; H-bonded bases stacked inside. 1. DNA strands are directional 1. Nucleotide = sugar-phosphate + base 4. The strands form a double helix
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Nucleic-acid building blocks nucleoside nucleotide glycosidic bond
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Geometry of DNA bases and base pairs! C G T A H-bonds satisfied Similar width Similar angle to glycosidic bonds Pseudo-symmetry of 180° rotation
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Major groove and minor groove definitions Major groove Minor groove Subtended by the glycosydic bonds Opposite the glycosydic bonds
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Comparison of B DNA and A DNA (formed at different humidity) bp/turn Base tilt M ajor groove M inor groove P-P distance 10 small wide Narrow 6.9 Å 11 20° narrow & deep wide & shallow 5.9 Å Major groove (winds around) Minor groove 3.4- 3.6 Å Bps near helix axis Bps off helix axis
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Average structure of dsRNA (like A DNA) “side” view “End” view 3’ 5’ 5’ 3’ Minor groove shallow and wide Major groove deep and narrow (distortions needed for proteins to contact bases) Twist/bp ~ 32.7° ~ 11 bp/turn Bases tilted
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DNA structure varies with sequence 1. “Dickerson dodecamer” crystal structure
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LECTURE 1 Introduction to the Course- Nucleic Acid...

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