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The DNA helix is stabilized by I.hydrogen bonds between phosphate groups. II.stacking interactions. III.an entropically favored interaction between hydrophobic groups. IV.favorable electrostatic interactions.


A) I, II, III, IV
B) I, II, IV
C) II, IV
D) III, IV
E) II, III

F) None of the above
G) D) and E)

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During which of the following processes are RNA−DNA hybrids observed?


A) transcription, both eukaryotic and prokaryotic
B) translation, both eukaryotic and prokaryotic
C) replication, both eukaryotic and prokaryotic
D) transcription, prokaryotic only
E) replication, prokaryotic only

F) D) and E)
G) C) and D)

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Which of the following is FALSE regarding DNA binding to proteins?


A) Most eukaryotic transcription factors contain a conserved DNA-binding basic region.
B) The basic regions typically bind in the major groove of its target DNA.
C) Eukaryotic transcription factors either contain an HTH motif or resemble the met repressor.
D) all of the above
E) none of the above

F) A) and B)
G) A) and C)

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Which atoms, or groups attached to them, face into the major groove of B- DNA? Which atoms, or groups attached to them, face into the major groove of B- DNA?   A) purine 1 & 2; pyrimidine 2 & 3 B) purine 2 & 3; pyrimidine 2 C) purine 8 & 9; pyrimidine 1 & 6 D) purine 6 & 7; pyrimidine 4 & 5 E) purine 6 & 7; pyrimidine 2


A) purine 1 & 2; pyrimidine 2 & 3
B) purine 2 & 3; pyrimidine 2
C) purine 8 & 9; pyrimidine 1 & 6
D) purine 6 & 7; pyrimidine 4 & 5
E) purine 6 & 7; pyrimidine 2

F) A) and B)
G) C) and D)

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In A-DNA


A) the glycosidic bond is in the syn conformation with a C3'-endo sugar pucker.
B) the glycosidic bond is in the syn conformation with a C2'-endo sugar pucker.
C) the glycosidic bond is in the anti conformation with a C3'-endo sugar pucker.
D) the glycosidic bond is in the anti conformation with a C2'-endo sugar pucker.
E) the glycosidic bond conformation and sugar pucker is dependent on the base.

F) A) and E)
G) B) and C)

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Matching Choose the correct answer from the list. Not all the answers will be used. -The denaturation of DNA is a ______ cooperative process.


A) type I
B) ribocatalyzers
C) C2'-endo
D) repressors
E) ethidium
F) type II
G) C3'-endo
H) hybridized
I) interchanged
J) supercoiled
K) cooperative
L) non-cooperative
M) underwound
N) ribozymes
O) deuterium
P) zinc finger
Q) leucine zipper

R) D) and Q)
S) B) and H)

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Which of the following can be determined from a Northern blot?


A) the size of a gene transcript
B) the abundance of a gene transcript
C) the tissue specificity of gene transcript
D) the stage-specificity of a gene transcript
E) all of the above

F) C) and D)
G) A) and D)

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Hammerhead ribozyme


A) contains a catalytic core with a Fe2+ at its center.
B) utilizes hydrogen bonding to position itself favorably for nucleophilic attack.
C) enhances the rate of cleavage of itself by a factor of five.
D) A and C
E) B and C

F) B) and D)
G) A) and B)

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A circular 25000 base pair DNA molecule with no supercoils will have _____ helical twists if it is B-DNA.


A) about 2.5
B) about 25
C) about 250
D) about 2500
E) about 25000.

F) C) and E)
G) A) and B)

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Indirect readout refers to I.a protein's ability to form hydrogen bonds through a network of water molecules. II.the 5 to 3 sequence on the opposite strand of a DNA helix. III.a protein's ability to recognize a specific DNA sequence by its backbone conformation and flexibility. IV.the protein's ability to make hydrogen bonds with nonesterified phosphate oxygens


A) I, III, IV
B) II, IV
C) III, IV
D) I, III
E) I, IV

F) None of the above
G) B) and D)

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Which of the following statements about zinc fingers is FALSE?


A) Zinc fingers contain Cys and His residues.
B) Zinc is tetrahedrally coordinated as part of a small compact protein domain.
C) More than one finger can be found in a protein; as many as 60 have been observed.
D) Zinc fingers are the predominant DNA-binding motif of restriction enzymes.
E) A zinc finger recognizes specific sequences of DNA via its N-terminal helices.

F) None of the above
G) B) and D)

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Matching Choose the correct answer from the list. Not all the answers will be used. -_________ topoisomerases that make double-strand breaks in DNA in a controlled fashion.


A) type I
B) ribocatalyzers
C) C2'-endo
D) repressors
E) ethidium
F) type II
G) C3'-endo
H) hybridized
I) interchanged
J) supercoiled
K) cooperative
L) non-cooperative
M) underwound
N) ribozymes
O) deuterium
P) zinc finger
Q) leucine zipper

R) C) and H)
S) C) and Q)

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Which of the following is FALSE about RNA?


A) It may be double stranded in viral genomes.
B) It may form double stranded stems by binding its complementary bases within the same strand.
C) It always forms a single strand that resembles the structure of B-DNA.
D) It is only synthesized as a single strand.
E) It may be involved in the control of gene expression.

F) All of the above
G) A) and E)

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Which of the following is NOT a requirement of genetic material?


A) The lifetime of the material must be such that it can undergo repeated decoding.
B) The material must be accessible for replication, transcription, and translation.
C) The material must be capable of duplication.
D) The material must perform a read only function to minimize damaging changes in structure.
E) none of the above

F) None of the above
G) B) and E)

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The sequence-specific binding of BamHI to DNA depends primarily on


A) hydrogen bonding and allows binding to less specific sequences as well.
B) hydrogen bonding and precludes binding to any other sequence.
C) stacking interactions and could be mimicked using an intercalation molecule.
D) hydrogen bonding and could be mimicked using an intercalation molecule.
E) none of the above

F) A) and E)
G) B) and D)

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Which of the following statements about the structure and conformation of DNA is FALSE?


A) DNA binding proteins distort DNA structure
B) Changes in ionic strength can alter DNA structure
C) Specific sequences can cause deviations in conformation.
D) Changes in DNA conformation result from energy minimizations and do not relate to in vivo conditions.
E) All of the above are true.

F) A) and C)
G) A) and B)

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Matching Choose the correct answer from the list. Not all the answers will be used. -Naturally occurring circular DNA is typically _______.


A) type I
B) ribocatalyzers
C) C2'-endo
D) repressors
E) ethidium
F) type II
G) C3'-endo
H) hybridized
I) interchanged
J) supercoiled
K) cooperative
L) non-cooperative
M) underwound
N) ribozymes
O) deuterium
P) zinc finger
Q) leucine zipper

R) M) and N)
S) H) and P)

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Histone H1 binds to ____ which allows attachment to _____.


A) the nucleosome core particle; nucleases
B) linker DNA; the next nucleosome
C) the nucleosome core particle; the next nucleosome
D) linker DNA; nucleases
E) none of the above

F) D) and E)
G) None of the above

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The sugar pucker is___ in the ___form.


A) C2'-endo; A-DNA
B) C3'-endo; B-DNA
C) C2'-endo for pyrimidines and C3'-endo for purines: Z-DNA
D) C2'-endo for purines and C3'-endo for pyrimidines: B-DNA
E) C2'-endo for purines and C3'-endo for pyrimidines: A-DNA

F) C) and E)
G) A) and C)

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Matching Choose the correct answer from the list. Not all the answers will be used. -Heptad repeats are found in the ______ region of DNA binding proteins.


A) type I
B) ribocatalyzers
C) C2'-endo
D) repressors
E) ethidium
F) type II
G) C3'-endo
H) hybridized
I) interchanged
J) supercoiled
K) cooperative
L) non-cooperative
M) underwound
N) ribozymes
O) deuterium
P) zinc finger
Q) leucine zipper

R) F) and P)
S) C) and O)

Correct Answer

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