Cellular Metabolism [BIOLOGY]

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Ayen B.

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  • Introduction to Cellular Metabolism
    Every living organism needs energy and some organisms have cells that allow them to create their food. These organisms are called autotrophs (plants doing photosynthesis is an example of an autotroph) but others need to eat and convert the food into energy. These are heterotrophs which also include us human beings.
  • Cellular Respiration
    1. Glycolysis
    2. Pyruvate Oxidation
    3. Krebs Cycle, Citric Acid Cycle, or TCA (Tricarboxylic Acid) Cycle
    4. Oxidative Phosphorylation
    5. Electron Transport Chain (ETC)
    6. Chemiosmosis
  • Photosynthesis
    1. Light-dependent Reaction
    2. Light-independent Reactions
  • Cellular Respiration
    For many heterotrophs, energy is gained through the process of cellular respiration. Cellular respiration is a catabolic process. It means larger compounds are broken down resulting in the release of energy. Imagine chewing food but on a molecular scale. On your left are the reactants and the products yielded are on the right. The chemical equation is the reverse of photosynthesis and the equation simplifies the complex process which occurs in every cell. To better familiarize with the entire process, we will dissect it into its different steps.
  • Cellular Respiration
    Life on earth is based on carbon. The food we eat is composed of a series of carbon molecules linked with hydrogen and other organic compounds. Among the foods which are easier to digest and therefore convert into energy are carbohydrates, compounds composed of carbon, hydrogen, and oxygen. Most abundant among them is the monosaccharide glucose (C6H1206). Energy is stored in the chemical bonds of these compounds and is released by breaking the links.
  • Cellular Respiration
    Before diving into the steps or stages, it is important to establish that the main goal of cellular respiration is to create energy that comes in the form of ATP (Adenosine Triphosphate). Think of it as a currency in the cell. In addition, proteins called enzymes, more specifically electron carriers, are essential in regulating and facilitating the process. Chief of this is Nicotinamide adenine dinucleotide (NAD + /NADH) and then flavin adenine dinucleotide (FAD/FADH2 ).
  • Cellular Respiration
    • [1] Glycolysis
    The first step in cellular respiration is glycolysis, which simply means breaking up the glucose molecule. The content of cells is suspended in the cytoplasm. Within this cytoplasm is a fluid called cytosol which also contains enzymes that aid the process. Once glucose enters this intracellular fluid, the enzymes break it into 2 pyruvic acid (or pyruvate, both used interchangeably) molecules.
  • Cellular Respiration
    • [1] Glycolysis
    This process requires 2 ATP and as the step proceeds, it yields a net of 2 ATPs as there are two pyruvate molecules. In anaerobic cellular respiration, the process ends here when the glucose is split into 2 pyruvic acid molecules. In addition, high-energy electrons are also transferred to the electron carrier NAD + through reduction resulting in the electron carrier NADH with 2 NADH yielded in this step. These electron carriers are more important in the last step of cellular respiration.
  • Cellular Respiration
    • [2] Pyruvate Oxidation
    This is where the mitochondria and their importance in the process become apparent. The mitochondrion is a cellular unit called an organelle and is composed of two membranes, an inner and outer membrane.
  • Cellular Respiration
    • [2] Pyruvate Oxidation
    The pyruvic acid is able to diffuse past these membranes and into the mitochondrial matrix; the innermost compartment of the mitochondrion. Pyruvic acid is split then chained to an enzyme resulting in the 2-carbon compound Acetyl Coenzyme A (Acetyl CoA). The cleaved carbon combines with oxygen to form carbon dioxide, a waste product. Acetyl CoA is then subjected to the next process.
  • Cellular Respiration
    • [3] Krebs Cycle, Citric Acid Cycle, or TCA (Tricarboxylic Acid) Cycle
    Still in the matrix, the Krebs cycle is a closed-loop; this means the last part of the cycle reforms the molecule used to initiate the step. The cycle involves eight major steps resulting in citrate, isocitrate, ketoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate. .
  • Cellular Respiration
    • [3] Krebs Cycle, Citric Acid Cycle, or TCA (Tricarboxylic Acid) Cycle
    Mnemonic: “Citrate Is Kreb’s Starting Substrate For Making Oxaloacetate''. Each series of reactions release energy and is captured in molecules of NADH, ATP, and FADH2 . Two turns will take place due to glycolysis producing two pyruvic acid molecules. After the 2nd turn of the cycle, the glucose molecule has been broken down completely with all six carbon atoms combined with oxygen to form carbon dioxide. This stage yields: 2 ATPs, 6 NADH, and 2 FADH2 .
  • Cellular Respiration
    • [4] Oxidative Phosphorylation
    • Electron Transport Chain (ETC)
    The inner membrane of the mitochondria is filled with proteins called complexes (4 main complexes, labeled “complex I” to “IV”, in the mitochondrion) which move electrons from NADH and FADH2 to oxygen. Energy from the carriers is also transferred to ATP. An electron transport chain is a series of molecules that transfer electrons from one molecule to another by chemical reactions.
  • Cellular Respiration
    • [4] Oxidative Phosphorylation
    • Electron Transport Chain (ETC)
    Some of the energy from the electrons pump the positively charged hydrogen ions (H + ) from the matrix into the intermembrane space. NADH transfers electrons from complex I while FADH2 is only able to enter the chain starting at complex II. Thus, NADH yields more ATPs compared with FADH2 .
  • Cellular Respiration
    • [4] Oxidative Phosphorylation
    • Chemiosmosis
    As more ions are pumped, this creates a difference in concentrations of charges, an electrochemical gradient, between the intermembrane space and the matrix. This gradient causes the ions to flow from high to low concentration, from the intermembrane space back into the matrix.
  • Cellular Respiration
    • [4] Oxidative Phosphorylation
    • Chemiosmosis
    Facilitating this process is the protein ATP Synthase which acts as a channel, helping hydrogen ions cross the membrane. As its name suggests, it also forms ATP from ADP (Adenosine Diphosphate) by adding another phosphate. The flow of hydrogen ions through ATP synthase provides energy for ATP synthesis. After passing the electron transport chain, the electrons combine with oxygen and form water.
  • How much energy do we gain through cellular respiration?
    We will follow current estimates that electron carrier NADH yields 2.5 ATPs while FADH2 yields 1.5 ATP during the electron transport chain.
    • Stage: Products | ATP Yield (in Oxidative Phosphorylation)
    • Glycolysis: 2 ATP, 2 NADH | 2 ATP, 5 ATP
    • Pyruvate Oxidation: 2 NADH | 5 ATP
    • Krebs Cycle: 2 ATP, 6 NADH, 2 FADH2 | 2 ATP, 15 ATP, 3 ATP
    • Total: 32 ATP
  • Photosynthesis
    Life on Earth is powered by the sun. Through the process of photosynthesis, plants use solar energy to convert carbon dioxide (CO2 ) and water (H2O) to sugars and other organic molecules, releasing oxygen (O2) as a by-product. In a way, photosynthesis is the reverse of cellular respiration and is considered an anabolic process, where complex and larger compounds are made from simpler building blocks.
  • Photosynthesis
    All green plants have chloroplasts with the leaves being the major sites of photosynthesis. A leaf’s green color comes from chlorophyll, a light-absorbing pigment that plays a central role in converting solar energy to chemical energy. f you examine a cross-section of a leaf, chloroplasts are concentrated within cells found in the mesophyll, the green tissue within leaves. CO2 and O2 enter or exit the leaf through tiny pores called stomata. Water absorbed by the plant is delivered to the leaves in veins. The veins are also used to export sugar to other parts of the plant.
  • Photosynthesis
    In the chloroplast, two membranes enclose an inner compartment which is filled with a thick fluid called the stroma. Suspended in this fluid are interconnected sacs called thylakoids, which enclose another internal compartment, called the thylakoid space. Thylakoids when arranged in stacks are called grana and built within the thylakoid membranes are the chlorophyll molecules that capture light energy. The thylakoid membranes also contain machinery that converts light to chemical energy, which is then used in the stroma of the chloroplast to make sugar.
  • Photosynthesis
    Light-dependent reaction
    1. Sunlight and Photosynthetic Pigments
    2. Electron Transport Chain in Plants
  • Photosynthesis
    Light-dependent reaction
    The first process occurs in the thylakoids. This light-dependent reaction or light reactions convert light to chemical energy and release oxygen. Water is split to provide electrons along with giving off oxygen as a result. Light energy is absorbed by chlorophyll molecules in the thylakoid membranes and this is used to drive the transfer of electrons and H + from water to the electron acceptor NADP + , reducing it to NADPH.
  • Photosynthesis
    Light-dependent reaction
    Think of NADPH as a cousin to cellular respiration’s NADH, only differing in NADPH having an extra phosphate group. NADPH temporarily stores electrons and provides “reducing power” to the next process. The light reactions also generate ATP from ADP and a phosphate group. To summarize, the light reactions absorb light energy and convert it into chemical energy which is then stored in ATP and NADPH
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    Light can act as either a particle or a wave. What concerns plants is that light is made of photons which contain a fixed amount of energy that they must harness. To do this, plants have different photosynthetic pigments that allow them to harness different wavelengths of sunlight. We do not see the absorbed wavelengths, we see those which are transmitted or reflected by the pigments, which in most cases is green.
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    Chloroplasts contain more than one pigment. Chlorophyll a is able to absorb mainly blue-violet and red light. A similar pigment, chlorophyll b, absorbs blue and orange light mainly. Chlorophyll b broadens the range of light that plants can use by conveying their absorbed energy to chlorophyll a, which directly participates in the light reactions.
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    Chloroplasts also contain carotenoids which are the various shades of yellow and orange we see in fall leaves when green chlorophyll breaks down and carotenoids show through; and in other plants, we perceive them as those colors. They can function in photosynthesis but they are more for protection since carotenoids seem to absorb and dissipate excess light energy that would otherwise damage chlorophyll. They also react with oxygen, which can damage cell molecules due to their reactivity
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    [1] In the thylakoid membrane, chlorophyll molecules are organized into clusters called photosystems. A photosystem contains two complexes: a reaction-center complex surrounded by many light-harvesting complexes. The light-harvesting complex contains many pigment molecules which are bound to proteins; the number and variety of pigments can harvest more light over a large surface area and a wider range of the light spectrum than a single pigment absorbs alone.
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    [2] Together, these light-harvesting complexes act in gathering energy that is transferred from one molecule to another. Think of a human “wave” in sporting events. Energy is transferred until it reaches the reaction-center complex which contains a pair of special chlorophyll a molecule, called primary electron acceptor, capable of accepting electrons and becoming reduced.
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    [3] When an electron from a reaction-center chlorophyll a is boosted to a higher energy level (this state is also called an “excited” state), it is immediately captured by the primary electron acceptor. This is the first step in transforming light into chemical energy in light reactions.
  • Photosynthesis
    Light-dependent reaction
    • Sunlight and Photosynthetic Pigments
    [4] They are referred to as photosystems I and II, in order of their discovery. In the reaction, however, photosystem II acts first in the sequence that makes up the light reactions. Each of the two photosystems has a distinct reaction-center complex, which contains the special pair of chlorophyll a molecules that are named according to the maximum wavelength of light they can absorb: P700 is the name of the chlorophyll a in photosystem I while those of photosystem II is called P680 --> generate ATP and NADPH
  • Photosynthesis
    Light-dependent reaction
    • Electron Transport Chain in Plants
    Part of it is the arrangement of the photosystems in the thylakoid membranes and their connection through an electron transport chain. This arrangement is often called the Z scheme. Another is the flow of electrons removed from water through these components to NADPH. The final part is the synthesis of ATP which is linked to an ETC that pumps H + into a membrane compartment which flows through ATP synthase embedded in the membrane, much like in cellular respiration.
  • Photosynthesis
    Light-dependent reaction
    • Electron Transport Chain in Plants
    [1] Where do the electrons that move through the photosystems to NADPH come from? The electrons that reduce NADP + to NADPH come from water. The thylakoid space has enzymes that split water into two electrons, two hydrogen ions, and an oxygen atom. The oxygen atom immediately joins another oxygen atom forming oxygen gas (O2 ). Water is the source of O2 produced in photosynthesis, and these oxygen molecules diffuse out the thylakoids, the chloroplast, and the plant cell, finally exiting the leaf through the stomata.
  • Photosynthesis
    Light-dependent reaction
    • Electron Transport Chain in Plants
    [2] The electrons from water are passed, one by one, to the chlorophyll a in photosystem II, replacing the excited electron that was captured by the primary electron acceptor. From photosystem II, the electrons pass through the ETC to the reaction center chlorophyll a in photosystem I, again replacing the excited electron that has been captured by its primary electron acceptor. The electrons are passed through a short electron transport chain to NADP+ , reducing it to NADPH.
  • Photosynthesis
    Light-dependent reaction
    • Electron Transport Chain in Plants
    [3] All that is left now is ATP. It's simpler, the players and processes we met in ATP synthesis in cellular respiration play the same role in plants. Recall that in chemiosmosis, the concentration gradient from the pumping of H + powers ATP synthesis with the rotating ATP synthase phosphorylating ADP to produce ATP.
  • Photosynthesis
    Light-independent reaction
    1. Calvin Cycle
  • Photosynthesis
    Light-independent reaction
    The light-independent reaction is also known as the Calvin cycle. It occurs in the stroma of the chloroplast. It is a series of reactions that assemble sugar molecules using carbon dioxide and the energy-rich products of the light reactions. The incorporation of carbon from carbon dioxide into organic compounds is called carbon fixation. After fixing carbon, the carbon compounds are reduced to sugars.
  • Photosynthesis
    Light-independent reaction
    The NADPH from the light reactions provides electrons that reduce carbon compounds in the Calvin cycle while the ATP from the light reactions provides the chemical energy that fuels several steps of the Calvin cycle. Although the Calvin cycle is referred to as the dark reactions or light-independent reactions, in most plants the cycle occurs during the day when the light reaction is able to supply the cycle with NADPH and ATP.
  • Photosynthesis
    Light-independent reaction
    The Calvin cycle is like a sugar factory in chloroplasts. ATP and NADPH from the light reactions are used to reduce carbon dioxide into sugars. The output of this cycle is an energy-rich three-carbon sugar, glyceraldehyde-3-phosphate (G3P). Plants make use of this G3P to form glucose, sucrose, and other organic molecules as needed.
  • Photosynthesis
    Light-independent reaction
    The Cycle can be described in four main steps with the starting material being a five-carbon sugar called ribulose biphosphate (RuBP). To make a molecule of G3P, the cycle must turn thrice, incorporating three molecules of CO2 molecules to end up with a complete G3P molecule.
  • Photosynthesis
    Light-independent reaction
    1. Carbon Fixation occurs when the enzyme rubisco attaches CO2 to RuBP. This unstable six-carbon molecule splits into two three-carbon molecules.
    2. Reduction occurs after, where ATP and NADPH are used to reduce the three-carbon molecule to G3P.
    3. The next step releases one molecule of G3P, this occurs every three CO2 molecules that are fixed.
    4. The last step regenerates RuBP. It is a series of chemical reactions which uses ATP to rearrange the atoms in five G3P molecules to form three RuBP molecules.