Molecular Biology Concepts Quiz
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Questions and Answers

Match the following terms with their correct definitions:

Paternally imprinted gene = Not expressed from the chromosome provided from the mother, but expressed from a chromosome from the father snRNAs = Functional RNAs that can repress translation of certain mRNAs Poly-A polymerase = Processing factor that adds the poly-A sequence to the 3'-end of prokaryotic mRNAs Histone methylation = Epigenetic mark that can be found in chromatin of expressed or repressed genes

Which of the following is a conserved nucleotide in introns that forms a covalent bond with the 5' nucleotide?

  • Branch point (correct)
  • miRNAs
  • Sigma factor
  • Histone methylation
  • X-chromosome inactivation is a dosage compensation mechanism in mammals.

    True (A)

    What is the primary function of miRNAs?

    <p>To repress translation of certain mRNAs</p> Signup and view all the answers

    The _____ factor is associated with actively expressed genes.

    <p>sigma</p> Signup and view all the answers

    Which of the following genes is affected in the GAL7(UAS∆) mutant?

    <p>GAL7 (D)</p> Signup and view all the answers

    What type of gene is expressed from the chromosome provided by the father but not from that provided by the mother?

    <p>Paternally imprinted gene (D)</p> Signup and view all the answers

    GAL4 is a transcriptional repressor for the GAL7 and GAL10 genes.

    <p>False (B)</p> Signup and view all the answers

    The _____ sequence is added to the 3'-end of prokaryotic mRNAs.

    <p>poly-A</p> Signup and view all the answers

    Histone methylation is associated with gene repression exclusively.

    <p>False (B)</p> Signup and view all the answers

    What does it mean for GAL4 to be described as a 'modular protein'?

    <p>GAL4 is a modular protein because it has distinct functional domains that can operate independently to regulate gene expression.</p> Signup and view all the answers

    The GAL4 transcriptional activator binds to the _______ sequences upstream of the GAL7 and GAL10 genes.

    <p>UAS</p> Signup and view all the answers

    Match the strains with their expected GAL7 expression in the presence of galactose:

    <p>Wild type = Expressed GAL4- = Not expressed GAL80- = Expressed GAL3- = Not expressed</p> Signup and view all the answers

    Which sequence is NOT required for RNA polymerase holoenzyme binding in prokaryotes?

    <p>The GC-rich box and the CCAAT box (A), An upstream enhancer (B), The TATA box (D)</p> Signup and view all the answers

    AraC acts as a repressor when arabinose is present.

    <p>False (B)</p> Signup and view all the answers

    What is transcriptional attenuation?

    <p>A regulatory mechanism that allows premature termination of transcription in response to specific signals.</p> Signup and view all the answers

    Phosphorylation of the C-terminal domain of RNA polymerase II is required for ____________.

    <p>transcriptional elongation</p> Signup and view all the answers

    What is required for transcriptional termination in E. coli?

    <p>Both B and C (B)</p> Signup and view all the answers

    Eukaryotic genes contain introns, which makes transcriptional attenuation possible.

    <p>False (B)</p> Signup and view all the answers

    What factor is required for binding RNA polymerase II to the promoter region?

    <p>The TATA box and additional transcription factors</p> Signup and view all the answers

    Match the following factors with their roles in transcription:

    <p>RNA polymerase II = Transcriptional elongation AraC = Regulation of the arabinose operon Rho factor = Transcriptional termination in E. coli AAUAAA sequence = Transcriptional termination in eukaryotes</p> Signup and view all the answers

    Which type of RNA brings amino acids to the ribosome?

    <p>Transfer RNA (D)</p> Signup and view all the answers

    Eukaryotic mRNAs have a poly-A sequence added to their 3' end.

    <p>True (A)</p> Signup and view all the answers

    What is the primary function of spliceosome positioning RNAs?

    <p>To facilitate the splicing of pre-mRNA.</p> Signup and view all the answers

    The 5'-Cap is added to certain mRNAs, which helps in ______ stability and translation initiation.

    <p>mRNA</p> Signup and view all the answers

    Which statement is true about RNA molecules compared to DNA molecules?

    <p>RNA contains ribose sugars. (C)</p> Signup and view all the answers

    Match the following RNA types with their functions:

    <p>Messenger RNA = Carries genetic information from DNA to ribosomes Transfer RNA = Brings amino acids to ribosomes Ribosomal RNA = Makes up the structure of ribosomes Small nuclear RNA = Involved in RNA splicing</p> Signup and view all the answers

    RNA molecules can be synthesized in both 5' to 3' and 3' to 5' directions.

    <p>False (B)</p> Signup and view all the answers

    What recognizes conserved promoter sequences in DNA?

    <p>RNA polymerase holoenzyme</p> Signup and view all the answers

    What is the sequence of the anti-codon that recognizes the AUG codon?

    <p>UAC</p> Signup and view all the answers

    What type of mutation could potentially lead to Mutant 1 expressing the lac operon genes constitutively?

    <p>Mutation in the repressor gene (A), Mutation in the promoter region (B)</p> Signup and view all the answers

    Mutant 2 fails to express genes in the presence of lactose.

    <p>True (A)</p> Signup and view all the answers

    In the presence of lactose, Mutant 3 expresses low levels of the lac operon genes due to a mutation in the ______.

    <p>repressor</p> Signup and view all the answers

    List the possible codons that the tRNA with anti-codon 3'-CAU-5' can recognize.

    <p>5'-GUA-3', 5'-GUC-3', 5'-GUG-3'</p> Signup and view all the answers

    Which E. coli lac operon mutant expresses genes only in the presence of lactose at low levels?

    <p>Mutant 3 (A)</p> Signup and view all the answers

    Match the mutants with their corresponding lac operon expression pattern:

    <p>Mutant 1 = Constitutive high expression Mutant 2 = No expression Mutant 3 = Low expression in presence of lactose</p> Signup and view all the answers

    Which components should be included in the in vitro RNA synthesis reactions?

    <p>rNTPs and RNA polymerase (D)</p> Signup and view all the answers

    What proportion of triplets will encode proline given a ratio of 2C:1U?

    <p>4/9 (B)</p> Signup and view all the answers

    The amino acids methionine and valine can form a di-peptide during translation.

    <p>True (A)</p> Signup and view all the answers

    What does the 'R group' on an amino acid represent?

    <p>Side chain</p> Signup and view all the answers

    In a Methionine-Valine di-peptide, the __________ bond forms between the amino group of methionine and the carboxylic acid group of valine.

    <p>peptide</p> Signup and view all the answers

    Match the following amino acids with their corresponding structure:

    <p>Methionine = Contains a sulfur atom in its side chain Valine = Branched side chain with two methyl groups Alanine = Simple side chain consisting of a single methyl group Leucine = Branched side chain with an extra carbon</p> Signup and view all the answers

    What is the function of the tRNA in protein synthesis?

    <p>To transport amino acids to the ribosome</p> Signup and view all the answers

    The codon AUG codes for Methionine, the start signal for translation.

    <p>True (A)</p> Signup and view all the answers

    Flashcards

    paternally imprinted gene

    A gene that is expressed only if it comes from the father's chromosome.

    snRNAs

    Functional RNAs involved in splicing.

    poly-A polymerase

    Enzyme that adds a poly-A tail to the mRNA.

    histone methylation

    An epigenetic mark affecting gene expression.

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    miRNAs

    Small RNAs that can regulate mRNA translation.

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    X-chromosome inactivation

    Dosage compensation mechanism in mammals using one X chromosome.

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    branch point

    Conserved nucleotide in introns needed for splicing.

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    sigma factor

    A protein needed for transcription initiation.

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    Anti-parallel orientation

    The two strands of DNA run in opposite directions, one 5' to 3' and the other 3' to 5'. This allows for complementary base pairing between the two strands.

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    RNA vs. DNA

    RNA contains ribose sugars and uracil, while DNA contains deoxyribose sugars and thymine.

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    RNA polymerase holoenzyme

    A multi-subunit protein complex that initiates transcription by binding to a promoter sequence on DNA.

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    5' cap

    A modified guanine nucleotide added to the 5' end of eukaryotic mRNAs, protecting the mRNA from degradation.

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    Transcription direction

    RNAs are always synthesized 5' to 3' direction, regardless of which DNA strand is used as a template.

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    Poly-A tail

    A sequence of adenine nucleotides added to the 3' end of eukaryotic mRNAs, increasing stability and aiding in translation.

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    Spliceosome

    A large complex of proteins and RNA molecules that removes introns from pre-mRNA during eukaryotic RNA processing.

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    GAL4 function

    GAL4 is a protein that acts as a transcriptional activator for the GAL7 and GAL10 genes. It binds to upstream activating sequences (UAS) located before these genes.

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    GAL4 and galactose

    The presence of galactose activates the GAL4 protein, leading to the transcription of the GAL1, 2, 7 and 10 genes.

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    GAL80 role

    GAL80 is a repressor protein that inhibits GAL4's activity by physically binding to it. This prevents GAL4 from activating the GAL genes in the absence of galactose.

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    GAL3 function

    GAL3 is an enzyme that converts galactose into galactose-1-phosphate, which is the signal that activates GAL4 and releases it from inhibition by GAL80.

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    Modular protein

    A modular protein is a protein that is composed of discrete functional units, or domains, that can be combined in different ways to create different proteins with different functions.

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    In vitro RNA synthesis

    The process of creating RNA molecules outside of a living cell, typically in a laboratory setting. This method involves using enzymes like RNA polymerase and providing the necessary building blocks (rNTPs).

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    rNTPs

    Ribonucleoside triphosphates are the building blocks of RNA. Each rNTP consists of a ribose sugar, a nitrogenous base (adenine, guanine, cytosine, or uracil), and three phosphate groups.

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    RNA polymerase

    The enzyme responsible for synthesizing RNA molecules. It uses a DNA template to create a complementary RNA strand.

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    Codon

    A sequence of three nucleotides in mRNA that codes for a specific amino acid.

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    Triplet

    A sequence of three nucleotides in DNA or RNA.

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    Proportion of triplets encoding proline

    The fraction of all possible three-nucleotide combinations (triplets) that code for the amino acid proline.

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    Amino group

    A functional group consisting of a nitrogen atom bonded to two hydrogen atoms (-NH2).

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    Carboxylic acid group

    A functional group consisting of a carbon atom double-bonded to an oxygen atom and single-bonded to a hydroxyl group (-COOH).

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    RNA synthesis direction

    RNA is always synthesized from the 5' to 3' direction, regardless of which DNA strand it's transcribed from.

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    -35 and -10 regions

    These sequences are located upstream of the transcription start site in prokaryotes and are recognized by the RNA polymerase holoenzyme.

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    AraC function in arabinose operon

    AraC protein acts as an activator in the presence of arabinose, allowing transcription of genes needed for arabinose metabolism. In the absence of arabinose, it acts as a repressor, preventing transcription.

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    Transcriptional attenuation in prokaryotes

    This mechanism regulates gene expression by allowing translation and transcription to occur simultaneously in prokaryotes.

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    C-terminal domain (CTD) phosphorylation

    Phosphorylation of the CTD of RNA polymerase II is essential for the elongation phase of transcription in eukaryotes.

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    Transcriptional termination in E. coli

    Termination of transcription in E. coli depends on either a rho factor binding to specific sequences or formation of a stable hairpin structure in the mRNA.

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    Transcriptional termination in human cells

    Transcriptional termination in human cells is primarily dependent on the presence of an AAUAAA sequence in the mRNA 3'-UTR, followed by polyadenylation.

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    RNA polymerase II function

    RNA polymerase II is the primary enzyme involved in transcribing protein-coding genes in eukaryotes.

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    Anti-codon for AUG

    The sequence of nucleotides on a tRNA that base pairs with the AUG start codon on mRNA. It is 3'-UAC-5'.

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    Wobble rules

    The rules that govern non-standard base pairing between the third position of a codon and the first position of an anticodon. This allows some tRNAs to recognize multiple codons.

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    tRNA for Valine

    There are two tRNAs that can recognize Valine codons. They have anti-codons 3'-CAU-5' and 3'-CAG-5'.

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    Codons recognized by 3'-CAU-5'

    This tRNA can recognize the codons GUU, GUC, and GUA. This is due to the wobble rules, which allow the third position of the codon to pair with more than one nucleotide in the first position of the anticodon.

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    Codons recognized by 3'-CAG-5'

    This tRNA can recognize the codons GUG and GUA.

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    Mutant 1 phenotype

    Constitutive expression of lacZ, Y, and A genes, meaning they are expressed all the time regardless of the presence or absence of lactose.

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    Possible mutation for Mutant 1

    A mutation in the lac repressor gene (lacI) that prevents the repressor from binding to the operator, thus allowing constitutive expression of the lac operon genes.

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    Mutant 2 phenotype

    No expression of lacZ, Y, and A genes in either the presence or absence of lactose.

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    Study Notes

    Part 1: Matching

    • Paternally imprinted gene: Expressed from the chromosome inherited from the father, not the mother.
    • snRNAs: Conserved nucleotides in introns, forming a covalent bond with the 5' nucleotide of the intron.
    • Poly-A polymerase: Processing factor that adds the poly-A sequence to the 3' end of prokaryotic mRNAs.
    • Histone methylation: Associated with actively expressed genes.
    • miRNAs: Functional RNAs that can repress translation of certain mRNAs.
    • Sigma factor: Enhancer binding protein.
    • Branch point: Conserved nucleotide located at the 5' end of introns.
    • X-chromosome inactivation: Dosage compensation mechanism in mammals.

    Part 2: Multiple Choice

    • DNA double helix forms through base-pair complementarity in an anti-parallel orientation.
    • DNA contains ribose sugars and adenine nucleotides.
    • RNA of different genes can be transcribed off either strand, but always synthesized 5' to 3'.
    • Prokaryotic cis-acting sequences for RNA polymerase holoenzyme binding include the -35 and -10 regions.
    • AraC functions as a repressor when arabinose is absent and an activator when arabinose is present.
    • Transcriptional attenuation is a prokaryote-specific mechanism because prokaryotic mRNAs can be translated while they are being transcribed.

    Part 3: Short Answer

    • Amino acids & structure: Methionine and valine structures are displayed, with clear identification of amino group, carboxylic acid group, and alpha-carbon.
    • Di-peptide: A diagram of Methionine-Valine di-peptide is drawn, highlighting the peptide bond between the amino acids.
    • Specific tRNA: In a diagram, the position of attached Methionine (Met-tRNAMet) is indicated in the charged tRNA.
    • Anticodon sequence: Sequence of the anti-codon that recognizes AUG codon (5' to 3') is determined. (e.g. UAC)
    • Valine codons and wobble rules: Codons that are recognized by two different tRNAs with specific anti-codons are outlined using the wobble rules. This shows multiple codons are possible matching a specific anti-codon.
    • Lac operon regulation A table is provided with various types of mutations affecting the lac operon in various situations: absent and presence of lactose.
    • Yeast GAL genes and regulation: A table details expression of GAL genes in the presence and absence of galactose under various genetic conditions.
    • Briefly explains what a modular protein is for the GAL4 transcriptional activator.

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