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Nucleotides & Nucleic Acids
by Mahwish Kazmi
Date 12 Dec 2014
DNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoire
• DNA was first isolated and characterized by Friedrich
Miescheri n 1868. He called the phosphorus-containing
substance" nuclein.
• The first direct evidence that DNA is the bearer of genetic
information came in 1944 through a discovery made by
Oswald T. Avery, Colin MacLeod, and Maclyn McCarty.
• They found that DNA extracted from a virulent (disease-
causing) strain of the bacterium Streptococcus pneumoniae,
also known as pneumococcus, genetically transformed a
nonvirulent strain of this organism into a virulent form.
• Avery and his colleagues concluded that the DNA extracted
from the virulent strain carried the inheritable genetic
message for virulence.
(Reference from lehninger ed. 4, CH # 8)
DNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoire
• Then in 1952, experiments by Alfred D. HersheyAlfred D. HersheyAlfred D. HersheyAlfred D. Hershey and MarthaMarthaMarthaMartha
ChaseChaseChaseChase, in which they studied the infection of bacterial cells by
a virus (bacteriophage) with radioactively labeled DNA or
protein, removed any remaining doubt that DNA, not protein,
carried the genetic information.
• Erwin CharaguffErwin CharaguffErwin CharaguffErwin Charaguff concluded his work in late 1940's on
following points.
1. The base composition of DNA generally varies from one
species to another.
2. DNA specimens isolated from different tissues of the same
species have the same base composition.
3. The base composition of DNA in a given species does not
change with an organism's age, nutritional state, or changing
environment
Charaguff's RuleCharaguff's RuleCharaguff's RuleCharaguff's Rule
4. In all cellular DNAs, regardless of the species, the number of
adenosine residues is equal to the number of the pyrmidine
residues (A=T), and the number of guanosine residues is
equal to the number of cytidine residues (G=C) from these
relationships it follows that the sum of the purine residues
equals the sum of the pyrimidine residues (A+G=T+C)
ProblemProblemProblemProblem
• In samples of DNA isolated from two unidentified species of
bacteria, X and Y, adenine makes up 32% and 17%,
respectively, of the total bases. What relative proportions of
adenine, guanine, thymine, and cytosine would you expect to
find in the two DNA samples?
X-ray analysis of DNAX-ray analysis of DNAX-ray analysis of DNAX-ray analysis of DNA
• RosalindRosalindRosalindRosalind FranklinFranklinFranklinFranklin and Maurice WilkinsMaurice WilkinsMaurice WilkinsMaurice Wilkins,,,, in early 1950, used
the powerful method of x-ray diffraction to analyze DNA fibers.
• From that pattern it was deduced that DNA molecules are
helical with two periodicities along their long axis, a primary
one of 3.4 Å and a secondary one of 34 Å.
DNA is a double HalixDNA is a double HalixDNA is a double HalixDNA is a double Halix
• Putting together much
published data, WatsonWatsonWatsonWatson andandandand
CrickCrickCrickCrick postulated that native
DNA consists of two
antiparallel chains in a right-
handed double-helical
arrangement.
• Complementary base pairs,
A=T and G=C, are formed by
hydrogen bonding within the
helix.
• The base pairs are stacked
perpendicular to the long axis
of the double helix, 3.4 Å apart,
with 10.5 base pairs per turn.
• The hydrophilic backbones of
alternating deoxyribose and
phosphate groups are on the
outsideoutsideoutsideoutside of the double helix,
facing the surrounding water.
• The purine and pyrimidine
bases of both strands are
stacked insideinsideinsideinside the double
helix, with their hydrophobic
and nearly planar ring
structures very close together
and perpendicular to the long
axis.
• The offset pairing of the two
strands creates a majormajormajormajor
groovegroovegroovegroove and minor grooveminor grooveminor grooveminor groove on
the surface of the duplex.
WatsonWatsonWatsonWatson and Crickand Crickand Crickand Crick DNA modelDNA modelDNA modelDNA model
WatsonWatsonWatsonWatson and Crickand Crickand Crickand Crick DNA modelDNA modelDNA modelDNA model
• The DNA double helix is held together by two forces,
1. hydrogen bonding between complementary base pairs
2. base-stacking interactions,
• The complementarity between the DNA strands is
attributable to the hydrogen bonding between base pairs.
• The base-stacking interactions make the major
contribution to the stability of the double helix.
Logical deduction from DNA model
• The model immediately
suggested a mechanism for
the transmission of genetic
information.
• DNA is replicated by
(1) separating the two strands and
(2) synthesizing a complementary
strand for each.
• Because nucleotides in each
new strand are joined in a
sequence specified by the
base-pairing rules stated earier,
each preexisting strand
functions as a template to
guide the synthesis of one
complementary strand.
Different 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNA
• DNA is a remarkably flexible molecule.
• Many significant deviations from the Watson-Crick DNA structure
are found in cellular DNA.
Structural variation in DNA reflects three things:
• The different possible conformations of the deoxyribose,
• rotation about the contiguous bonds that make up the
phosphodeoxyribose backbone,
• free rotation about the C-1'-N-glycosyl bond.
• Purines in purine nucleotides are restricted to two stable
conformation with respect to deoxyribose, called synsynsynsyn and anti-anti-anti-anti-
confirmation.
• Pyrimidines are generally restricted to the anti-conformation
because of steric interference between the sugar and the carbonyl
oxygen at C-2 of the pyrimidine
Different 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNA

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DNA a genetic repertoire

  • 1. Nucleotides & Nucleic Acids by Mahwish Kazmi Date 12 Dec 2014
  • 2. DNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoire • DNA was first isolated and characterized by Friedrich Miescheri n 1868. He called the phosphorus-containing substance" nuclein. • The first direct evidence that DNA is the bearer of genetic information came in 1944 through a discovery made by Oswald T. Avery, Colin MacLeod, and Maclyn McCarty. • They found that DNA extracted from a virulent (disease- causing) strain of the bacterium Streptococcus pneumoniae, also known as pneumococcus, genetically transformed a nonvirulent strain of this organism into a virulent form. • Avery and his colleagues concluded that the DNA extracted from the virulent strain carried the inheritable genetic message for virulence. (Reference from lehninger ed. 4, CH # 8)
  • 3. DNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoireDNA - a genetic repertoire • Then in 1952, experiments by Alfred D. HersheyAlfred D. HersheyAlfred D. HersheyAlfred D. Hershey and MarthaMarthaMarthaMartha ChaseChaseChaseChase, in which they studied the infection of bacterial cells by a virus (bacteriophage) with radioactively labeled DNA or protein, removed any remaining doubt that DNA, not protein, carried the genetic information. • Erwin CharaguffErwin CharaguffErwin CharaguffErwin Charaguff concluded his work in late 1940's on following points. 1. The base composition of DNA generally varies from one species to another. 2. DNA specimens isolated from different tissues of the same species have the same base composition. 3. The base composition of DNA in a given species does not change with an organism's age, nutritional state, or changing environment
  • 4. Charaguff's RuleCharaguff's RuleCharaguff's RuleCharaguff's Rule 4. In all cellular DNAs, regardless of the species, the number of adenosine residues is equal to the number of the pyrmidine residues (A=T), and the number of guanosine residues is equal to the number of cytidine residues (G=C) from these relationships it follows that the sum of the purine residues equals the sum of the pyrimidine residues (A+G=T+C)
  • 5. ProblemProblemProblemProblem • In samples of DNA isolated from two unidentified species of bacteria, X and Y, adenine makes up 32% and 17%, respectively, of the total bases. What relative proportions of adenine, guanine, thymine, and cytosine would you expect to find in the two DNA samples?
  • 6. X-ray analysis of DNAX-ray analysis of DNAX-ray analysis of DNAX-ray analysis of DNA • RosalindRosalindRosalindRosalind FranklinFranklinFranklinFranklin and Maurice WilkinsMaurice WilkinsMaurice WilkinsMaurice Wilkins,,,, in early 1950, used the powerful method of x-ray diffraction to analyze DNA fibers. • From that pattern it was deduced that DNA molecules are helical with two periodicities along their long axis, a primary one of 3.4 Å and a secondary one of 34 Å.
  • 7. DNA is a double HalixDNA is a double HalixDNA is a double HalixDNA is a double Halix • Putting together much published data, WatsonWatsonWatsonWatson andandandand CrickCrickCrickCrick postulated that native DNA consists of two antiparallel chains in a right- handed double-helical arrangement. • Complementary base pairs, A=T and G=C, are formed by hydrogen bonding within the helix. • The base pairs are stacked perpendicular to the long axis of the double helix, 3.4 Å apart, with 10.5 base pairs per turn.
  • 8. • The hydrophilic backbones of alternating deoxyribose and phosphate groups are on the outsideoutsideoutsideoutside of the double helix, facing the surrounding water. • The purine and pyrimidine bases of both strands are stacked insideinsideinsideinside the double helix, with their hydrophobic and nearly planar ring structures very close together and perpendicular to the long axis. • The offset pairing of the two strands creates a majormajormajormajor groovegroovegroovegroove and minor grooveminor grooveminor grooveminor groove on the surface of the duplex. WatsonWatsonWatsonWatson and Crickand Crickand Crickand Crick DNA modelDNA modelDNA modelDNA model
  • 9. WatsonWatsonWatsonWatson and Crickand Crickand Crickand Crick DNA modelDNA modelDNA modelDNA model • The DNA double helix is held together by two forces, 1. hydrogen bonding between complementary base pairs 2. base-stacking interactions, • The complementarity between the DNA strands is attributable to the hydrogen bonding between base pairs. • The base-stacking interactions make the major contribution to the stability of the double helix.
  • 10. Logical deduction from DNA model • The model immediately suggested a mechanism for the transmission of genetic information. • DNA is replicated by (1) separating the two strands and (2) synthesizing a complementary strand for each. • Because nucleotides in each new strand are joined in a sequence specified by the base-pairing rules stated earier, each preexisting strand functions as a template to guide the synthesis of one complementary strand.
  • 11. Different 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNA • DNA is a remarkably flexible molecule. • Many significant deviations from the Watson-Crick DNA structure are found in cellular DNA. Structural variation in DNA reflects three things: • The different possible conformations of the deoxyribose, • rotation about the contiguous bonds that make up the phosphodeoxyribose backbone, • free rotation about the C-1'-N-glycosyl bond. • Purines in purine nucleotides are restricted to two stable conformation with respect to deoxyribose, called synsynsynsyn and anti-anti-anti-anti- confirmation. • Pyrimidines are generally restricted to the anti-conformation because of steric interference between the sugar and the carbonyl oxygen at C-2 of the pyrimidine
  • 12. Different 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNADifferent 3-D forms of DNA