MCDB 3135 Study Guide - Quiz Guide: Transcription Bubble, Sigma Factor, Phosphodiester Bond

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camalama

28 Mar 2023

School

CU-Boulder

Department

Molecular Cell & Developmental Biology

Course

MCDB 3135

Professor

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Document Summary

Transcription is the reaction of rna polymerization using a dna template. Only one strand is copied (template strand) at the transcription bubble. Note: on a chromosome, the template strand is not always the same. Transcription is selective: only some portions of dna are transcribed. Transcription occurs all over the cell cycle => transcription in all cells, including non-dividing cells. Coding strand = non-template strand = same sequence as rna (except t-u) Transcription starts on promoter region, at +1 site (= transcription start site, or tss) Rna polymerases in bacteria (rnap) and eukaryotes (rna pol i, ii and iii) resemble a claw, with active site at the cleft. Rna polymerases have 3 channels: entry/exit of dna, rna exit channel (where the synthesized rna exits) and a channel for entry of the rntps. In the active site, the pin helps separate the 2 strands of dna (=transcription bubble ~15bp)

Related Questions

1. A region of a chromosome contains two strands of DNA, yet only one is used to transcribe a gene because

A. all genes are found on the same strand of DNA in a chromosome.

B.both strands are transcribed, but only one strand of DNA contains a reading frame.

C.RNA polymerase binds to the terminator, stopping transcription on one strand of DNA.

D.RNA polymerase binds to the promoter, which precedes the gene only on the template strand of DNA.

E.the start of transcription is random along the chromosome and doesn't always occur on a gene.

2. In eukaryotes an mRNA molecule can only be translated by one ribosome at a time.

True or False

3.The process by which cells use the information of RNA molecules to make proteins is transcription.

True or False

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.

byzantiumscorpion425

1. Which of the following is the correct sequence of events (from start to finish) in cellular fatty acid oxidation?

A. Fatty acid activationÃ carnitine shuttleÃ beta-oxidation

B. Beta-oxidationÃ carnitine shuttleÃ Fatty acid activation

C. Fatty acid activationÃ carnitine shuttleÃ beta-oxidation

D. Carnitine shuttleÃ Fatty acid activationÃ beta-oxidation

2. What reaction is catalyzed by lipoprotein lipase, or lipase?

A. Hydrolysis of TAGs into fatty acids and glycerol

B. Hydrolysis of TAGs into amino acids and glycerol

C. Hydrolysis of cholesterol in to fatty acid and water

D. Hydrolysis of cholesterol into acetyl-CoA

3. How do fatty acids of different carbon lengths cross into the mitochondrial matrix for oxidation?

A. Small FAs of 10 carbons or fewer can freely diffuse through the membrane

B. Large FAs are cleaved into two smaller units that are actively transported across the membrane

C. A membrane-bound transferase catalyzes the conversion of long-chain FAs and FA-carnitine esters, which are transported across the membrane via a specific carrier

D. The breakdown of large FAs starts outside the matrix, allowing for the smaller particles to pass easily through the membrane

4. How can any RNA nucleotide be easily distinguished from a DNA nucleotide?

A. RNA nucleotides have a unique phosphodiester bond linkage

B. RNA nucleotides have uracil nitrogenous bases

C. RNA nucleotides have an -OH on the 2â carbon of the ribose

D. RNA nucleotides cannot be easily distinguished from DNA nucleotides

5. Which of the following statement is true concerning the sequence pTACGTAACGTA?

A. This is an RNA sequence

B. In order to have a more rigid structure in a double-stranded molecule, the sequence given would need more adenosine

C. If the complementary strand were present, the number of purines would be equal to the number of pyrimidines

D. The amount of purines is equal to the amount to pyrimidines

6. Complementary base pairing is considered which level of structure?

A. Secondary

B. Tertiary

C. Quaternary

D. Primary

7. Which of the following is/are required for the polymerization reaction catalyzed by DNA polymerase III?

I. RNA primer

II. DNA primer

III. RNA template

IV. DNA template

V. NTPs

VI. dNTPs

VII. Magnesium

VIII. Calcium

A. II, IV, V, and VII

B. II, IV, VI, and VII

C. I, IV, V, and VIII

D. I, IV, VI, and VII

8. DNA polymerase I, from E. coli, has three different catalytic sites. Which of the following is NOT one of them?

A. RNA-dependent RNA polymerase

B. RNA-dependent DNA polymerase

C. DNA-dependent RNA polymerase

D. DNA-dependent DNA polymerase

9. Eukaryotes solve the problem of replicating the ends of their linear chromosomes by:

A. Using a protein as primer

B. Enzyme activity that uses an RNA template and reverse transcription in a series of repeat cycles

C. All of the listed solution

D. Terminal redundancy whereby each end of the chromosome is duplicated allowing recombination

MCDB 3135 Study Guide - Quiz Guide: Transcription Bubble, Sigma Factor, Phosphodiester Bond

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