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Nucleic Acid Structure. Structure of nucleotides Nitrogenous bases Pentose sugars Nucleosides Nucleotides Nucleotide chains Structure of B-DNA Images accompanying this lecture may be found at http://www.prenhall.com/klug4/ Select chapter 10. A. Structure of Nucleotides.

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nucleic acid structure
Nucleic Acid Structure
  • Structure of nucleotides
  • Nitrogenous bases
  • Pentose sugars
  • Nucleosides
  • Nucleotides
  • Nucleotide chains
  • Structure of B-DNA

Images accompanying this lecture may be found athttp://www.prenhall.com/klug4/Select chapter 10

a structure of nucleotides
A. Structure of Nucleotides
  • A nucleotide is composed of
    • A nitrogenous base
    • A pentose sugar
    • A phosphate group
nitrogenous bases
Nitrogenous Bases
  • Two different classes of aromatic carbon-nitrogen heterocycles
    • Purines
      • Adenine (Found in DNA & RNA)
      • Guanine (Found in DNA & RNA)
    • Pyrimidines
      • Cytosine (Found in DNA & RNA)
      • Thymine (Found in DNA)
      • Uracil (Found in RNA)
c pentose sugars
C. Pentose Sugars
  • Ribose
    • Found in RNA
    • Forms a 5-atom ring structure in aqueous solution
    • Carbons are numbered 1´ (one-prime), 2´, 3´, 4´, 5´
c pentose sugars5
C. Pentose Sugars
  • Deoxyribose
    • Found in DNA
    • Identical to ribose, except that the “-OH” group on the 2´ carbon is replaced with an “-H”
d nucleosides
D. Nucleosides
  • Nucleoside
    • A pentose sugar molecule with a nitrogenous base attached to the 1´ carbon
    • Nucleosides are named by using the root of the base name, plus the suffix “-osine” (for purines) or “-idine” (for pyrimidines)
    • Nucleosides with deoxyribose sugars are designated with the prefix “deoxy-”
e nucleotides
E. Nucleotides
  • Nucleotide
    • A nucleoside with one, two, or three phosphate groups attached to the 5´ carbon
    • Nucleotides are named using the name of the nucleoside plus “monophosphate,” “diphosphate,” or “triphosphate” depending on the number of phosphates
    • Nucleotides with one phosphate may also be named by changing the nucleoside suffix to “-ylic acid”
f nucleotide chains
F. Nucleotide Chains
  • The 5´ carbon of one nucleotide can be linked to the 3´ carbon of another nucleotide via a phosphodiester bond
  • An oligonucleotide chain (polynucleotide chain) is a linear chain of nucleotides linked in this fashion
  • The oligonucleotide chain has two ends: 5´ and 3´
g structure of b dna
G. Structure of B-DNA
  • In the 1940s, Chargaff discovered that the DNA isolated from most sources exhibited a 1:1 molar ratio of A:T, and a 1:1 ratio of G:C (as compared to RNA, in which the A:U and G:C ratios are random)
g structure of b dna12
G. Structure of B-DNA
  • In the early 1950s, Watson, Crick, and Franklin studied the X-ray diffraction patterns of crystalline DNA fibers, and determined that DNA had a symmetrical 3-D structure in the form of a helix
g structure of b dna13
G. Structure of B-DNA
  • Watson & Crick knew of Chargaff’s ratios, and realized that they could build a helical model for DNA structure, consistent with the X-ray data
g structure of b dna14
G. Structure of B-DNA
  • The Watson and Crick model is known as a B-DNA helix, and it is believed to be the native conformation of most DNA found in living organisms
g structure of b dna15
G. Structure of B-DNA
  • Features of the B-DNA helix:
    • Two oligonucleotide strands
    • The sugar-phosphate backbones of the strands are on the outside, and twist around a central axis to form a helix
    • The helical twists form two “grooves”that turn around the axis: the major groove and the minor groove
    • Therefore, DNA is a pretty groovy molecule
g structure of b dna16
G. Structure of B-DNA
  • The two strands are in antiparallel orientation (one strand goes from 5´  3´ and the other strand goes from3´  5´
  • These are the dimensions of the helix:20 Å diameter10 bases per turn34 Å per turn
g structure of b dna17
G. Structure of B-DNA
  • The bases are located in the center of the helix, with the flat planes of the bases perpendicular to the axis of the helix
  • The bases between the two strands are “paired” with an “A” on one strand paired with a “T” on the other strand, and “G” paired with “C”
  • This property of the strands is called complementarity (the two strands are said to be complementary to each other, thank you very much)
g structure of b dna18
G. Structure of B-DNA
  • The strands are held together by noncovalent “hydrogen bonds” between the complementary pairs of bases:A – T pairs have two hydrogen bondsG – C pairs have three hydrogen bonds
g structure of b dna19
G. Structure of B-DNA
  • The two strands may be separated by heating (“melting”) the DNA, or by raising the pH with alkaline treatment
  • Two pieces of single-stranded DNA will spontaneously form a helix if the strands have enough base complementarity
g structure of b dna20
G. Structure of B-DNA
  • An interactive tutorial on DNA structure can be found athttp://molvis.sdsc.edu/dna/index.htm
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