BIOL 172 Study Guide - Quiz Guide: Nucleoside Triphosphate, Dehydration Reaction, Guanine

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8 Jan 2020

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Given the sequence of one strand of a dna helix (below), provide the sequence of the complementary strand and label the 5 and 3 ends. 5"-cgaatcagtcgat-3": (2 pts) explain how you can tell a nucleotide is rna or dna from its structure if it is an a, Rna nucleotides have a hydroxyl (oh) group on the 2" carbon whereas dna has one less hydroxyl group and the hydroxyl on the 2" carbon is not present. The energy needed to add nucleotides comes from the bonds between phosphate groups on the precursor for the nucleotide (a nucleotide tri-phosphate). By cleaving the two extra phosphate groups energy is released and provides the energy needed to add the new nucleotides to the dna strand. The reaction used to add nucleotides to a dna strand is a condensation or dehydration synthesis reaction. For question 6 use the following figure and answer the three multiple choice questions (a, b, and c)

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1. During DNA replication, proteins unwind the DNA duplex, and separate the DNA strands. Those proteins include:

a.) DNA polymerase and ligase

b.) Single-stranded DNA binding and protein primase

c.) Helicase and DNA polymerase

d.) Helicase and single-stranded DNA binding protein

2. What determines the nucleotide sequence of the newly synthesized strand during DNA replication?

a.) The particular DNA polymerase catalyzing the reaction

b.) The relative amounts of the four nucleotide triphosphates (ATP, GTP, CTP, and TTP) in the cell

c.) The nucleotide sequence of the template strand

d.) The primase used in the reaction

e.) Both A and D

3. The leading and the lagging strands differ in that

a.) The leading strand is synthesized in the same direction as the movement of the replication fork, and the lagging strand is synthesized in the opposite direction.

b.) The leading strand is synthesized by adding nucleotides to the 3â hydroxyl (OH) end of the growing strand, and the lagging strand is synthesized by adding nucleotides to the 5â phosphate (PO4) end.

c.) The leading strand is synthesized continuously, whereas the lagging strand is synthesized in short fragments that are ultimately stitched together.

d.) Both A and B

e.) Both A and C

Respond to each sentance with true or false regarding the replication of DNA:

Complementary base pairing relies on the number of hydrogen bonds that each base can make.

In a single nucleotide, the phosphate group is attached to the 5' carbon of the sugar unit.

The antiparallel arrangement of double-stranded DNA is due to the phosphate group being bonded to the 3' carbon on one strand and the 5' carbon on the complementary strand.

The phosphate attached to the 5' carbon of a given nucleotide links to the 3' -OH of the adjacent nucleotide.

The -OH group on the 3' carbon of the sugar unit is the attachment site for the nitrogenous base.

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1.When a protein binds to DNA at a site defined by a particular nucleotide sequence, with which parts of the DNA does the protein primarily interact?

A. the phosphate and deoxyribose groups in the DNA backbone

B. the phosphate and deoxyribose groups in the DNA backbone, and hydrophobic interactions with the nucleotide bases

C. nucleotide bases within the major grooves of the DNA

D. nucleotide bases within the major and minor grooves of the DNA

E. none of the above

2. Which of the following proteins binds to DNA with sequence specificity?

A. POI Ill holoenzyme

B. DnaA

C. DnaB

D. Dam methylase

E. Both B and D

3. Which of the following is NOT a functional parallel among all known cellular systems of DNA replication?

A. Replication is initiated at specific sites

B. Replication is continuous on the leading strand and discontinuous on the lagging strand

C. DNA replication is semiconservative

D. Replication forks move away from the origin in one direction

E. Nucleases, polymerases and ligases replace RNA primers with DNA and seal the remaining nick

4. A DNA polymerase cannot synthesize a DNA strand de novo (from the beginning) from a mixture of dNTPs. Which of the following explains the role of the primer in the reaction promoted by this enzyme?

A. The primer is an initiation protein with attached nucleotides that binds to the template and to which new nucleotides are added to the 3 ' end.

B. The primer is an initiation protein with attached nucleotides that binds to the template and to which new nucleotides are added to the 5' end.

C. The primer is a preexisting strand of RNA or DNA to which new nucleotides are added to the 3' end.

D. The primer is a preexisting strand of RNA or DNA to which new nucleotides are added to the 5' end.

E. The primer is a preexisting strand of DNA synthesized by DNA pol I, prior to replicative DNA synthesis by DNA pol Ill.

5. Universal features of DNA polymerases include:

A. 5'-3' exonuclease function.

B. Formation of an 'closed' conformation of the polymerase when the template-nucleotide base pair is correct.

C. Use of a single magnesium ion to orient reacting molecules and assist in dissipation of the negative charge that develops during nucleotidyl transfer.

D. Alignment of conserved residues in the active site for attack of the DNA primer by the 3 'OH on the incoming nucleotide.

E. Continuous unbinding and rebinding of the polymerase to the DNA template as each nucleotide is added.

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BIOL 172 Study Guide - Quiz Guide: Nucleoside Triphosphate, Dehydration Reaction, Guanine

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