DNA and RNA

➢ She study X-ray diffraction to study wet fibers of DNA.

Gregor Mendel (1865)
The diffraction pattern is interpreted (using mathematical
• Introduce the concept of heredity theory) This can ultimately provide information concerning
Wilhelm Johannsen (1909) the structure of the molecule

• Coins the term “gene” Franklin’s Work

Thomas Hunt Morgan (1911) TWO FORMS OF DNA

In 1951 Rosalind Franklin discovers the Two Forms of DNA

• Discovers that genes are responsible for inheritance
through her X-ray diffraction images.
Phoebus Levene (1929)

• Discovers that DNA is made up of nucleotides,

phosphates, sugars and 4 bases

Oswald Avery (1944)

• Shows that DNA can transform the property of cells

However, this idea was not universally accepted

Erwin Chargaff (1950)

• Shows that: A + G = T + C = 50% Watson and Crick’s Work

A Few Key Events Led to the Discovery of the Structure of • In 1951 James Watson traveled from the United States to
DNA work with Francis Crick at Cambridge University.

➢ DNA as an acidic substance present in nucleus was • Watson and Crick used the “Model Building” approach.
first identified by Friedrich Meischer in 1868.
• They physically built models out of wire, sheet metal, nuts
➢ He named it as ‘Nuclein’.
and bolts to come up with the structure of DNA.
Hershey and Chase Experiment
Why did they build models?

“Sometimes the fingers can grasp what the mind cannot”

(Biology the Science of Life)

• DNA consists of two chains of nucleotides in a ladder-like

structure which is twisted (Double Helix)

• Used data of M.H.F. Wilkins and Rosalind Franklin, early

50’s

• Wilkins and Franklin studied the structure of DNA crystals

using X-rays.
Erwin Chargaff’s Experiment • The X pattern suggested the structure of DNA was a helix.
➢ Chargaff pioneered many of biochemical technique for • Chargaff’s Rule: His data showed that in each species, the
the isolation, purification and measurement of nucleic percent of A equals the percent of T, and the percent of G
acids from living cells. equals the percent of C.
➢ It was known that DNA contained the four bases: A, G, C
& T. • Watson and Crick had figured out the structure of
➢ Chargaff analyzed the base composition DNA isolated deoxyribonucleic acid, DNA. And that structure — a
from many different species. "double helix" that can "unzip" to make copies of itself
— confirmed suspicions that DNA carries life's
THE HYPOTHESIS hereditary information.
• In 1953 , James Watson and Francis Crick, described a
➢ An analysis of the base composition of DNA in different
very simple but famous Double Helix model for the
species may reveal important features about structure
structure of DNA.
of DNA.
• Widely regarded as one of the most important discoveries
Rosalind Franklin
of the 20th century it has led the way to the mapping and
➢ She worked in same laboratory as Maurice Wilkins. deciphering of all the genes in the human chromosomes.
Watson and Crick Model:

• The sides of the ladder are made up of alternating

molecules of phosphate and deoxyribose.

• The bases make up the rungs of the ladder are attracted by

a weak chemical bonds called hydrogen bonds.

• The DNA double helix is anti-parallel, which means that the

5' end of one strand is paired with the 3' end of its
complementary strand (and vice versa).

• 5'--------------->3‘

3'<---------------5' Nucleotide Structure

• Two hydrogen bonds connect T to A; three hydrogen bonds ➢ Nucleotides are formed by the condensation of a sugar,
connect G to C. phosphate and one of the 4 bases
DNA ➢ The following illustration represents one nucleotide

DNA:

➢ Deoxyribonucleic acid
➢ DNA - a polymer of deoxyribo- nucleotides.
➢ Usually double stranded.
➢ And have double-helix structure.
➢ found in chromosomes, mitochondria and
chloroplasts.
➢ It acts as the genetic material in most of the
organisms.
➢ Carries the genetic information

DNA STRUCTURE: ➢ Nucleotides are linked together by covalent bonds (A

chemical bond that involves sharing a pair of electrons
➢ DNA structure is often divided into four different between atoms in a molecule) called phosphodiester
levels primary, secondary, tertiary and quaternary. linkage.

DNA Double Helix and Hydrogen Bonding

Salient features of the Double-helix structure of DNA:

➢ It is made of two polynucleotide chains, where the

backbone is constituted by sugar-phosphate, and the
bases project inside.
➢ The two chains have anti- parallel polarity. It means, if
one chain has the polarity 5’ to 3’, the other has 3’ to 5’.

The Nitrogenous Base

THEY ARE DIVIDED INTO TWO GROUPS

➢ Pyrimidines and purines

PYRIMIDINES (MADE OF ONE 6 MEMBER RING)

➢ Thymine
➢ Cytosine
➢ The two strands are coiled in a right-handed fashion
PURINES (MADE OF A 6 MEMBER RING, FUSED TO A 5
MEMBER RING) (Clockwise). The pitch of the helix is 3.4 nm (a
nanometer is one billionth of a meter, that is 10-9 m) and
➢ Adenine there are roughly 10 bp in each turn. Consequently, the
➢ Guanine distance between a bp in a helix is approximately equal
to 0.34 nm.
THE RINGS ARE NOT ONLY MADE OF CARBON
 A-DNA

➢ The plane of one base pair stacks over the other in ✓ Right-handed helix
double helix. This, in addition to H-bonds, confers ✓ Wider and flatter than B-DNA
stability of the helical structure. ✓ 11 bp per turn
✓ Its bases are tilted away from main axis of molecule
✓ Narrow Deep major Groove and Broad, Shallow minor
Groove.
✓ Observed when less water is present. i.e.Dehydrating
condition.
✓ A-DNA has been observed in two context:

• Active site of DNA polymerase (~3bp)

• Gram (+) bacteria undergoing sporulation

There are two asymmetrical grooves on the outside of the Z-DNA

helix:
✓ A left-handed helix
a) Major groove ✓ Seen in Condition of High salt concentration.
✓ In this form sugar-phosphate backbones zigzag back and
b) Minor groove forth, giving rise to the name Z-DNA(for zigzag).
Groove:- any furrow (slight depression in the smoothness of ✓ 12 base pairs per turn.
a surface) or channel on a bodily structure or part. ✓ A deep Minor Groove.
✓ No Discernible Major Groove.
➢ Certain proteins can bind within these groove ✓ Part of some active genes form Z-DNA, suggesting that
➢ They can thus interact with a particular sequence of Z-DNA may play a role in regulating gene transcription.
bases.
Nucleosome Structure
Structure of Double-helix
➢ Nucleosome are the basic unit of the chromatin
Three major forms: organization.
➢ In Eukaryotes DNA associated with Proteins. (In
➢ B-DNA prokaryotes DNA is naked)
➢ A-DNA ➢ Nucleosomes= basic bead like unit of DNA packing
➢ Z-DNA ✓ Made of segment of DNA wound around a protein
B-DNA is biologically THE MOST COMMON core that is composed of 2 copies of each 4 types of
Histones.
✓ It is a -helix meaning that it has a Right handed, or ➢ Nucleosomes have:
clockwise, spiral. ✓ 8 Histones in the core
✓ Complementary base pairing ✓ DNA wrapped twice around the core
✓ One Histone holding the Nucleosome together
• A-T ✓ A DNA ‘linker’ continues towards the next
• G-C nucleosome.
➢ The DNA has a negatively charged backbone (because of
✓ Ideal B-DNA has 10 base pair per turn(360o rotation PO4 3- group)
of helix) ➢ The Protein (Histones) are positively charged.
✓ So each base is twisted 36o relative to adjacent ➢ The DNA and Protein are Electromagnetically attracted
bases. to each other to form chromatin.
✓ Base pair are 0.34 nm apart.
✓ So complete rotation of molecule is 3.4 nm. RNA
✓ Axis passes through middle of each basepairs. ➢ Ribonucleic Acid
✓ Minor Groove is Narrow, Shallow. ➢ RNA is a polymer of ribonucleotides linked together by
✓ Major Groove is Wide, Deep. ➢ phosphodiester linkage.
✓ This structure exists when plenty of water ➢ RNA was first genetic material.
surrounds molecule and there is no unusual base ➢ In 1967 Carl Woese found the catalytic properties of
sequence in DNA-Condition that are likely to be RNA and speculated that the earliest forms of life relied
present in the cells. on RNA both to carry genetic information and to catalyse
✓ B-DNA structure is most stable configuration for a biochemical reactions.
random sequence of nucleotides under ➢ Their theories were not validated until the work of Nobel
physiological condition. Prize laureate Thomas R. Cech. In the 1970s, Cech was
studying the splicing of RNA in a single-celled organism,
Tetrahymena thermophila, when he discovered that an
 unprocessed RNA molecule could splice itself. He
announced his discovery in 1982 and became the first to
show that RNA has catalytic functions.
➢ Usually single stranded and helical in structure.
➢ But double stranded also present in some viruses.

Hydrogen Bonding

➢ Usually RNA is single stranded, But in some viruses RNA

present in double stranded form.
➢ The bases in two strands are paired through hydrogen
RNA structure bond (H-bonds) forming base pairs (bp). Adenine forms
two hydrogen bonds with Uracil from opposite strand
and vice-versa. Similarly, Guanine is bonded with
Cytosine with three H-bonds.
There are also three main components
Types of RNA
➢ Phosphate Group
➢ Sugar(Ribose) ➢ In all prokaryotic and eukaryotic organisms, three main
➢ Nitrogenous base classes of RNA molecules exist-
The Nitrogenous Bases 1) Messenger RNA(m RNA)
They are divided into two groups: 2) Transfer RNA (t RNA)
➢ Purine 3) Ribosomal RNA (r RNA)
➢ Pyrimidine
➢ The other are –
Purines (made of a 6 member ring, fused to a 5 member ring) ✓ small nuclear RNA (SnRNA),
✓ micro RNA(mi RNA) and
➢ Adenine
✓ small interfering RNA(Si RNA) and
➢ Guanine
✓ heterogeneous nuclear RNA (hnRNA).
Pyrimidine (made of a 6 member ring)
Messenger RNA (m-RNA)
➢ Cytosine
➢ All members of the class function as messengers
➢ Uracil
carrying the information in a gene to the protein
Nucleotide synthesizing machinery

• Nucleotides are formed by the condensation of a sugar, Structure

phosphate and one of the 4 bases
➢ The 5’ terminal end is capped by 7- methyl guanosine
• The following illustration represents one nucleotide
triphosphate cap.
➢ The cap is involved in the recognition of mRNA by the
translating machinery.
➢ It stabilizes m RNA by protecting it from 5’ exonuclease.
➢ The 3’end of most m-RNAs have a polymer of Adenylate
residues( 20-250).
➢ The tail prevents the attack by 3’ exonucleases.
➢ On both 5’ and 3’ end there are non coding sequences
which are not translated (NCS)

Transfer RNA (t-RNA)

➢ Transfer RNA are the smallest of three major species of

RNA molecules
➢ They have 74-95 nucleotide residues ➢ Ribosomes contain two major rRNAs and 50 or more
➢ They transfer the amino acids from cytoplasm to the proteins.
protein synthesizing machinery, hence the name t RNA. ➢ The ribosomal RNAs form two subunits, the large
➢ They are also called Adapter molecules, since they act as subunit (LSU) and small subunit (SSU). The LSU rRNA
adapters for the translation of the sequence of acts as a ribozyme, catalysing peptide bond formation.
nucleotides of the m RNA in to specific amino acids
➢ There are at least 20 species of tRNA one corresponding Small RNA molecules
to each of the 20 amino acids required for protein Major types of small RNA molecules:
synthesis.
➢ tRNA is the only RNA species that contains the ➢ Small nuclear RNA (snRNA) - involved in mRNA splicing.
nucleoside thymidine. ➢ Small nucleolar RNA (snoRNA) - directs the modification
of ribosomal RNAs.
Structure ➢ Micro RNA (miRNA) and short interfering RNA (siRNA) -
1) Primary structure- The nucleotide sequence of all the t regulate gene expression.
RNA molecules allows extensive intrastrand Difference between RNA and DNA
complementarity that generates a secondary structure.

2) Secondary structure- Each single t- RNA shows extensive

internal base pairing and acquires a clover leaf like structure.
The structure is stabilized by hydrogen bonding between the
bases and is a consistent feature.

Secondary structure (Clover leaf structure)

All t-RNA contain 5 main arms or loops which are as follows-

a) Acceptor arm b) Anticodon arm

c) D HU arm (DihydroUracil)

d) TΨ C arm Thymidine Pseudouridine Cytosine

e) Extra arm

Ribosomal RNA (rRNA)

➢ Ribosomal ribonucleic acid (rRNA) is the RNA

component of the ribosome, and is essential for protein
synthesis in all living organisms.
➢ The functions of the ribosomal RNA molecules in the
ribosomal particle are not fully understood, but they are
necessary for ribosomal assembly and seem to play key
roles in the binding of mRNA to ribosomes and its
translation
➢ Recent studies suggest that an rRNA component
performs the peptidyl transferase activity and thus is an
enzyme (a ribozyme).
➢ It constitutes the predominant material within the
ribosome, which is approximately 60% rRNA and 40%
protein by weight.