Molecular Biology: DNA Function and Replication
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Questions and Answers

What is the primary function of DNA within a cell?

  • Protein synthesis
  • Energy production
  • Storage and transfer of genetic information (correct)
  • Cellular respiration
  • Where is most of the DNA located in a cell?

  • In the cytoplasm
  • Within the cell nucleus (correct)
  • In ribosomes
  • In the mitochondria
  • Which sugar is found in RNA?

  • 2′-deoxyribose
  • Glucose
  • Fructose
  • Ribose (correct)
  • What component is NOT part of a nucleotide?

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

    What distinguishes 2′-deoxyribose from ribose?

    <p>Missing an oxygen at carbon 2′ (B)</p> Signup and view all the answers

    What type of acids do nucleotides combine to form?

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

    Which of the following bases is derived from pyrimidine?

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

    What does the prefix 'deoxy-' in 2′-deoxyribose indicate?

    <p>Missing an oxygen (B)</p> Signup and view all the answers

    What term describes the type of DNA replication where one strand is the parent and the other is newly synthesized?

    <p>Semiconservative replication (C)</p> Signup and view all the answers

    What is the role of DNA helicase during DNA replication?

    <p>To unwind the DNA double helix (B)</p> Signup and view all the answers

    During DNA replication, which strand is synthesized continuously?

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

    What is the purpose of the enzyme primase in DNA replication?

    <p>To generate RNA primers for DNA synthesis (A)</p> Signup and view all the answers

    What occurs during the termination step of DNA replication?

    <p>RNA primers are removed and replaced with DNA (A)</p> Signup and view all the answers

    In the Meselson-Stahl experiment, what determined the observation of heavy and light DNA strands?

    <p>Growth in a nitrogen isotope medium (A)</p> Signup and view all the answers

    What characteristic distinguishes Okazaki fragments during DNA replication?

    <p>They consist of multiple RNA primers (A)</p> Signup and view all the answers

    What is the primary role of hydrophobic interactions in cell membranes?

    <p>To provide structural stability (C)</p> Signup and view all the answers

    What is the genetic information carried in eukaryotic chromosomes called?

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

    Which of the following statements describes prokaryotic chromosomes?

    <p>They have a simple structure (C)</p> Signup and view all the answers

    What structural component allows DNA to fit into the cell nucleus in eukaryotes?

    <p>Histone proteins (C)</p> Signup and view all the answers

    How many pairs of chromosomes do humans have?

    <p>23 pairs (B)</p> Signup and view all the answers

    What is the first level of structure in eukaryotic chromosomes?

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

    How does the structure of eukaryotic chromosomes vary among different species?

    <p>By the size and number of chromosomes (A)</p> Signup and view all the answers

    Which part of the chromosome provides structural support?

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

    What complex of DNA and protein forms the eukaryotic chromosomes?

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

    What type of proteins are represented by red beads in the chromosome structure description?

    <p>Histone proteins (C)</p> Signup and view all the answers

    What is formed when a sugar, base, and phosphate combine?

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

    Which part of a nucleotide chain is responsible for its directionality?

    <p>The free hydroxyl group and free phosphate group (D)</p> Signup and view all the answers

    How is the sequence of bases in a nucleic acid strand conventionally read?

    <p>From the 5′ end to the 3′ end (D)</p> Signup and view all the answers

    What type of linkage bonds sugar molecules in the nucleotide chain?

    <p>3′,5′-phosphodiester linkages (D)</p> Signup and view all the answers

    What charge does each nonterminal phosphate group in the nucleic acid backbone carry?

    <p>1- charge (A)</p> Signup and view all the answers

    What does the primary structure of a nucleic acid depend on?

    <p>The sequence of bases present (B)</p> Signup and view all the answers

    What is the term used to describe a nucleotide derived from a nucleoside?

    <p>5′-monophosphate (C)</p> Signup and view all the answers

    In the nucleotide structure, what is located at the 5′ end?

    <p>Free phosphate group (D)</p> Signup and view all the answers

    What type of bond is formed between phosphate groups and sugar molecules in a nucleotide?

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

    What does the sequence 5′ T–G–C–A 3′ represent?

    <p>A nucleotide chain base sequence (D)</p> Signup and view all the answers

    What is the primary difference between a nucleoside and a nucleotide?

    <p>A nucleotide includes a phosphate, but a nucleoside does not. (B)</p> Signup and view all the answers

    Which of the following correctly describes how nucleotides are formed?

    <p>Nucleotides are formed from the reaction of a sugar and a base followed by a reaction with a phosphate. (A)</p> Signup and view all the answers

    What type of bond connects the sugar to the nitrogenous base in a nucleoside?

    <p>A β-N-glycosidic bond (D)</p> Signup and view all the answers

    Which suffix is used to name nucleosides derived from pyrimidine bases?

    <p>-idine (C)</p> Signup and view all the answers

    What is produced during the formation of a nucleoside?

    <p>A molecule of water (A)</p> Signup and view all the answers

    In the context of nucleotide formation, what position on the sugar does the phosphate group attach?

    <p>C5′ (D)</p> Signup and view all the answers

    What indicates that a sugar molecule is deoxyribose in a nucleoside?

    <p>The presence of the prefix deoxy- (B)</p> Signup and view all the answers

    What type of reaction occurs during the formation of nucleotides and nucleosides?

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

    Which attachment is specific to purine bases in nucleoside formation?

    <p>Attachment through N9 (B)</p> Signup and view all the answers

    What is the solubility characteristic of nucleosides compared to free heterocyclic bases?

    <p>Nucleosides are more soluble because of the pentose’s -OH groups. (C)</p> Signup and view all the answers

    Flashcards

    What is a Nucleoside?

    A nucleoside is a combination of a pentose sugar and a nitrogen-containing base.

    What is a Nucleotide?

    A nucleotide consists of a pentose sugar, a nitrogenous base, and a phosphate group.

    What type of bond connects the sugar and base in a nucleoside?

    A β-N-glycosidic bond connects the pentose sugar and the nitrogenous base in a nucleoside.

    Where do purine and pyrimidine bases attach to the sugar?

    Purine bases attach to the pentose sugar at the N9 position, while pyrimidine bases attach at the N1 position.

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    How is a nucleoside formed?

    The formation of a nucleoside releases a water molecule. This is called a condensation reaction.

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    How are nucleosides named?

    Nucleosides are named using suffixes. Pyrimidines end in '-idine' (e.g., cytidine) and purines end in '-osine' (e.g., adenosine).

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    Where does the phosphate group attach in a nucleotide?

    A phosphate group is attached to the 5' carbon of the pentose sugar in a nucleotide.

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    What type of bond holds the phosphate to the sugar?

    The bond between the phosphate and the sugar in a nucleotide is called a phosphoester linkage.

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    How is a nucleotide formed from a nucleoside?

    The formation of a nucleotide also involves a condensation reaction, releasing a water molecule.

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    What are nucleotides used for?

    Nucleotides are the building blocks for nucleic acids like DNA and RNA.

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    What is DNA?

    Deoxyribonucleic acid (DNA) is a nucleic acid found primarily in the nucleus of cells, responsible for storing and transferring genetic information. It's passed to new cells during cell division.

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    What is RNA?

    Ribonucleic acid (RNA) is a nucleic acid found in all parts of a cell, primarily involved in protein synthesis. It helps translate genetic instructions from DNA into functional proteins.

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    What are Nucleotides?

    Nucleotides are the building blocks of nucleic acids. Each nucleotide consists of three parts: a pentose sugar, a phosphate group, and a nitrogenous base.

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    What's the difference between ribose and deoxyribose?

    The pentose sugar in a nucleotide is either ribose (for RNA) or deoxyribose (for DNA). The only difference is at the 2' carbon: ribose has an -OH group, while deoxyribose has an -H atom.

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    What are Nitrogenous Bases?

    Nitrogenous bases are the heterocyclic, nitrogen-containing molecules that bind to the pentose sugar in a nucleotide. There are two main types: purines (adenine and guanine) and pyrimidines (cytosine, thymine, and uracil).

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    What is the role of phosphate in a nucleotide?

    Phosphate, derived from phosphoric acid, is the third component of a nucleotide. In cellular conditions, it exists as a hydrogen phosphate ion (HPO42−).

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    What are nucleosides?

    Nucleosides are formed when a pentose sugar (ribose or deoxyribose) combines with a purine or pyrimidine base.

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    What are Nucleic Acids?

    Nucleic acids are unbranched polymers that consist of nucleotide monomers linked together. They are essential for storing and transferring genetic information, as well as protein synthesis.

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    Nucleotide Formation

    A nucleotide is formed when a sugar molecule, a base, and a phosphate group combine, releasing two water molecules.

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    Naming Nucleotides

    Nucleotides are named based on the nucleoside they are derived from, with "5'-monophosphate" added to the end.

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    Primary Structure of Nucleic Acids

    The primary structure of a nucleic acid is determined by the sequence of bases along its sugar-phosphate backbone.

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    Constancy of Sugar-Phosphate Backbone

    The sugar-phosphate backbone of a nucleic acid is consistent, meaning the differences in nucleic acids are solely due to their base sequences.

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    Phosphodiester Linkage

    Each phosphate group in the backbone connects to two sugar molecules through a 3',5'-phosphodiester linkage.

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    Directionality of Nucleic Acid Chain

    A nucleic acid chain has directionality, with a 5' end (free phosphate) and a 3' end (free hydroxyl group).

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    Reading Nucleic Acid Sequences

    The sequence of bases is read from the 5' end to the 3' end of a nucleic acid chain.

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    Charge of Phosphate Groups

    Each phosphate group in the backbone of a nucleic acid carries a negative charge.

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    Structure of Nucleic Acids

    The repetitive sugar-phosphate backbone gives nucleic acids a rigid, negatively charged structure.

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    Significance of Primary Structure

    Understanding the primary structure of nucleic acids is essential for studying genetic information and its transmission.

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    What is DNA Replication?

    DNA replication is the process by which a DNA molecule is duplicated, creating two identical DNA molecules.

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    What is semiconservative replication?

    Semiconservative replication is a model of DNA replication where each new DNA molecule consists of one original strand (parent strand) and one newly synthesized strand (daughter strand).

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    What is the replication fork?

    The replication fork is the point where the DNA double helix unwinds during replication. The unwinding process requires the action of DNA helicase.

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    What is DNA polymerase?

    DNA polymerase is an enzyme that adds new nucleotides to the growing DNA strand, forming a new strand complementary to the template strand.

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    Chromosome

    A piece of DNA carrying genetic instructions, or genes, of an organism.

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    What is the difference between leading and lagging strands?

    The leading strand is synthesized continuously in the 5' to 3' direction, while the lagging strand is synthesized discontinuously in short fragments called Okazaki fragments.

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    What are Okazaki fragments?

    Okazaki fragments are small fragments of DNA synthesized on the lagging strand during DNA replication. These fragments are later joined by DNA ligase.

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    Prokaryote

    A single-celled organism lacking a true nucleus and membrane-bound organelles.

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    Eukaryote

    A multi-celled organism with a true nucleus and membrane-bound organelles.

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    What are RNA primers?

    RNA primers are short RNA sequences that initiate DNA synthesis. They are later removed and replaced with DNA nucleotides.

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    Genome

    The complete set of genetic information in all the chromosomes of an organism.

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    Nucleosome

    The first level of chromosome structure, consisting of DNA wrapped around histone proteins.

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    Histones

    Proteins providing structural support for chromosomes, helping to compact and organize DNA.

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    Condensed fiber

    A coiled structure formed by nucleosomes, contributing to the compact structure of chromosomes.

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    Chromatin

    The complex of DNA and proteins that make up eukaryotic chromosomes.

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    Chromosomes number and size

    The number and size of chromosomes vary among species, with humans having 23 pairs and adder's tongue fern having 631 pairs.

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    Chromosome structure

    The structural arrangement of a DNA molecule, including its coiling and association with proteins.

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    Study Notes

    Nucleic Acids

    • Nucleic acids are unbranched polymers made up of nucleotide monomer units
    • Two main types: Deoxyribonucleic acid (DNA) and Ribonucleic acid (RNA)

    Types of Nucleic Acids

    • DNA: Found primarily in the cell nucleus. Its function is storing and transferring genetic information passed from existing cells to new cells during cell division.
    • RNA: Found in all parts of a cell. Functions primarily in the synthesis of proteins, which carry out essential cellular functions.

    Components of Nucleic Acids

    • Sugar: A five-carbon (pentose) sugar.
    • Phosphate: Derived from phosphoric acid.
    • Nitrogenous bases: Four heterocyclic amines: Purines (Adenine, Guanine) and Pyrimidines (Cytosine, Thymine, Uracil)

    Nucleotides

    • Nucleotides are the structural building blocks of nucleic acids.
    • Three subunits:
    • Pentose sugar (ribose or 2'-deoxyribose)
    • Nitrogenous base
    • Phosphate group(s)

    Nucleotide Formation

    • Happens in two steps:
    1. Sugar and base combine to form nucleoside.
    2. Nucleoside combines with phosphate to form nucleotide.
    • A bond called ẞ-N-glycosidic linkage joins sugar to base.
    • A molecule of water is formed as by-product when the sugar and base (form nucleoside) and nucleoside and phosphate (form nucleotide) combine.
    • Nucleosides are named as derivatives of the base with a suffix (-idine for pyrimidines, -osine for purines). The prefix "deoxy" is added is sugar is deoxyribose. No prefix is used if ribose is present.

    Nucleotide Formation: Phosphate

    • The phosphate component is derived from phosphoric acid (H3PO4).
    • Under cellular pH, phosphoric acid loses two hydrogen atoms to form a hydrogen phosphate ion.

    Nucleotides: Structural Building Blocks for Nucleic Acids (continued)

    • Adenosine triphosphate (ATP), a ribonucleotide, is an important example.
    • It is the primary energy currency of the cell.
    • Different abbreviations are used to represent different types of nucleotides.

    Nucleotides: Pentose Sugar

    • Sugar unit is either ribose or 2'-deoxyribose.
    • The difference between the two sugars is at carbon 2', where ribose has an -OH group, and 2'-deoxyribose has an -H atom.

    Nucleotides: Nitrogen-Containing Heterocyclic Bases

    • Purines (Adenine and Guanine) are double-ring structures
    • Pyrimidines (Cytosine, Thymine, and Uracil) are single-ring structures.
    • To remember purines, use the mnemonic: "Pure As Gold"
    • Caffeine and thiamine (Vitamin B1) are derivatives, respectively, of purines and pyrimidines

    DNA Structure: The Double Helix

    • DNA is a double helix
    • Two strands of DNA form a right-handed double helix
    • The bases in opposite strands hydrogen bond according to the AT/GC rule.
    • Two strands are antiparallel (orientated in opposite 5' to 3' directions)
    • There are ~10.0 nucleotides in each strand per complete 360° turn of the helix

    DNA Structure: Base Pairing

    • Only A-T and C-G base pairs occur because of a physical restriction that is due to the size of the interior of the helix.
    • The base-pairing enables a double helix structure

    DNA Structure: Hydrogen Bonding and Base Stacking

    • Hydrogen bonds between base pairs are important for stabilizing the DNA double helix.
    • Base-stacking interactions involving a given base and the parallel bases above and below it also stabilize the helix.
    • The bases are positioned with their planes parallel

    DNA Structure: Chromosomes

    • Chromosomes are pieces of DNA in cells
    • Prokaryotes have one chromosome, and the structure is simple
    • Eukaryotes have multiple chromosomes each having multiple levels of structure
    • The first level is nucleosome: DNA wrapped around a small disk including histone proteins

    DNA Replication

    • This biochemical process, which produces exact copies of DNA molecules, is critical for cells to perform correctly.
    • If mistakes are made during DNA replication in genes that are essential for the correct function of a cell, it can be lethal.

    DNA Replication: Overview

    • Chromatin disassembly
    • DNA double helix unwinding
    • Primer binding
    • Elongation
    • Termination

    Telomeres

    • Telomeres function as protective caps at the ends of linear DNA.
    • They protect important genes from being deleted as cells divide and DNA shortens during replication
    • A 6 base pair sequence (TTAGGG) is repeated 100-1000 times in humans.

    Chromosomes (continued)

    • Chromosomes are a complex of DNA and protein
    • Typically, a chromosome is about 15% by mass DNA and 85% by mass protein.
    • Chromosomes occur in homologous pairs, which are similar but not identical, for example, blue eyes versus brown eyes.

    Bacterial DNA Replication

    • DNA replication begins at a unique sequence called replication origin
    • Replication occurs bidirectionally at a high rate

    Eukaryotic DNA Replication

    • DNA replication in eukaryotes is much more complex
    • The human genome consisting of billions of nucleotide pairs makes this process more complex
    • Replication begins at many origins and proceeds bidirectionally

    Information Flow in Biological Systems

    • The central dogma of molecular biology states that the flow of genetic information in cells is one-way from DNA to RNA to protein.

    Types of RNA

    • hnRNA: Heterogeneous nuclear RNA, is RNA formed directly by DNA transcription.
    • mRNA: Messenger RNA carries instructions for protein synthesis and the length varies with the length of protein synthesis.
    • snRNA: Small nuclear RNA facilitates the conversion of hnRNA into mRNA.
    • rRNA: Ribosomal RNA combines with proteins to form ribosomes, the sites of protein synthesis
    • tRNA: Transfer RNA, delivers amino acids to the sites for protein synthesis.

    Alternative Splicing

    • Different proteins can be produced from a single gene
    • Important for the complexity of organisms such as humans where the number of proteins is high.

    The Genetic Code

    • mRNA is a sequence of amino acids in the mRNA that determines the amino acid order of the protein
    • A given triplet in mRNA will translate to a specific amino acid. The triplet is called a codon.
    • A total of 64 possible codon combinations, and certain codons signal the start and end of polypeptide chain.
    • The three codons (UGA, UAA, and UAG) are stop signals for protein synthesis.
    • AUG is the start codon that codes for methionine.

    Translation: Protein Synthesis

    • The process is carried out on ribosomes, which are complexes of ribosomal RNA and proteins.
    • Translation starts from a start codon on mRNA
    • The tRNA molecule (with attached amino acid) recognizes the codon
    • The first tRNA leaves and the next tRNA arrives to bond to mRNA, continuing the chain until a stop codon is reached, and the polypeptide chain is released.

    Post-Translation Processing

    • Proteins undergo modifications after translation to take their final form. These processes include: removal of met, formation of disulfide bridges, and completion of protein folding.

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