Nucleic Acids: Structure, Function, and DNA Discovery

1. Key Concepts Nucleotides consist of a sugar, phosphate group, and nitrogen-containing base. Ribonucleotides polymerize to form RNA. Deoxyribonucleotides polymerize to form DNA. DNA’s primary structure consists of a sequence of nitrogen-containing bases; its secondary structure consists of two DNA strands running in opposite directions, held together by complementary base pairing, and twisted into a double helix. DNA’s structure allows organisms to store and replicate the information needed to grow and reproduce.

2. Key Concepts RNA’s primary structure consists of a sequence of nitrogen-containing bases. Its secondary structure includes short regions of double helices and structures called hairpins. RNA was likely the first self-replicating molecule and a forerunner to the first life-form. Know the following scientists’ contributions to DNA’ discovery: 1. Frederick Griffith - transformation 2. Avery, McCarty, MacLeod – DNA as the genetic material 3. Alfred Hershey & Martha Chase – DNAas the genetic material 4. Linus Pauling – Protein structure & helical shape 5. Erwin Chargaff – correct base pairing 6. Maurice Wilkins & Rosalind Franklin – confirmed helical shape 7. Watson & Crick – overall shape of DNA 8. Meselson & Stahl – DNA replication

3. What Is a Nucleic Acid? A nucleic acid is a polymer of nucleotide monomers. Nucleotides are each composed of a phosphate group, a sugar, and a nitrogenous base. The sugar is ribose in ribonucleotides and deoxyribosein deoxyribonucleotides. There are two groups of nitrogenous bases: purines (adenine, guanine) pyrimidines (cytosine, uracil, and thymine) Uracil (U) is found only in ribonucleotides, and thymine (T) is found only in deoxyribonucleotides.

5. Could Chemical Evolution Produce Nucleotides? Simulations of chemical evolution have not yet produced nucleotides. Sugars and purines are easily made, but pyrimidines and ribose are not easily synthesized. Ribose problem: Ribose would have had to have been dominant on ancient Earth for nucleic acids to form.

6. Nucleotides Polymerize to Form Nucleic Acids Nucleic acids form when nucleotides polymerize. A condensation reaction forms a phosphodiester linkage (phosphodiester bond)between the phosphate group on the 5′ carbon of one nucleotide and the –OH group on the 3′ carbon of another. Types of nucleotides involved: Ribonucleotides, which contain the sugar ribose and form RNA Deoxyribonucleotides, whichcontain the sugar deoxyribose andform DNA

8. The Sugar-Phosphate Backbone Is Directional The sugar-phosphate backbone of a nucleic acid is directional—one end has a 5′ carbon, and the other end has a 3′ carbon. The nucleotide sequence is written in the 5′  3′ direction. This reflects the sequence in which nucleotides are added to a growing molecule. This nucleotide sequence comprises the nucleic acid’s primary structure.

9. The Polymerization of Nucleic Acids Is Endergonic Polymerization of nucleic acids is an endergonic process catalyzed by enzymes. Energy for polymerization comes from the phosphorylation of the nucleotides. Phosphorylation is the transfer of one or more phosphate groups to a substrate molecule. This raises the potential energy of the substrate and enables endergonic reactions. In nucleic acid polymerization, two phosphates are transferred, creating a nucleoside triphosphate.

11. What Is the Nature of DNA's Secondary Structure? Erwin Chargaff established two empirical rules for DNA: The total number of purines and pyrimidines is the same. The numbers of A’s and T’s are equal and the numbers of C’s and G’s are equal.

12. Watson and Crick’s Model of DNA’s Secondary Structure James Watson and Francis Crick determined: DNA strands run in an antiparallelconfiguration. DNA strands form a double helix. The hydrophilic sugar-phosphate backbone faces the exterior. Nitrogenous base pairs face the interior. Purines always pair with pyrimidines. Specifically, strands form complementarybasepairs A-T and G-C. A-T have two hydrogen bonds. C-G have three hydrogen bonds. DNA has two different sized grooves: the major groove and the minor groove.

14. Summary of DNA’s Secondary Structure DNA’s secondary structure consists of two antiparallel strands twisted into a double helix. The molecule is stabilized by hydrophobic interactions in its interior and by hydrogen bonding between the complementary base pairs A-T and G-C.

15. DNA Contains Biological Information DNA can store and transmit biological information. The language of nucleic acids is contained in the sequence of the bases. DNA carries the information required for the growth and reproduction of all cells.

16. RNA Structure and Function Like DNA, RNA has a primary structure consisting of a sugar-phosphate backbone formed by phosphodiester linkages and, extending from that backbone, a sequence of four types of nitrogenous bases. The primary structure of RNA differs from DNA in two ways: RNA contains uracil instead of thymine. RNA contains ribose instead of deoxyribose. The presence of the –OH group on ribose makes RNA much more reactive and less stable than DNA.

17. RNA’s Secondary Structure RNA’s secondary structure results from complementary base pairing. The bases of RNA typically form hydrogen bonds with complementary bases on the same strand. The RNA strand folds over, forming a hairpin structure: the bases on one side of the fold align with an antiparallel RNA segment on the other side of the fold. RNA molecules can have tertiary and quaternary structures.

19. RNA’s Versatility RNA is structurally, chemically, and functionally intermediate between DNA and proteins. RNA, due to its single-strandedness, is more reactive than DNA. Like DNA, RNA can function as an information-containing molecule, and is capable of self-replication. RNA can function as a catalytic molecule. Ribozymes are enzyme-like RNAs.

20. The First Life-Form: RNA RNA can both provide a template for copying itself and catalyze the polymerization reactions that would link monomers into a copy of that template. Thus, most origin-of-life researchers propose that the first life-form was made of RNA. RNA is not very stable, but might have survived long enough in the prebiotic soup to replicate itself, becoming the first life-form. Researchers found that a ribozyme called RNA replicase could be isolated that could catalyze the addition of ribonucleotides to a complementary RNA strand.