Unit 3: Cellular Energetics Flashcards

(139 cards)

1
Q

Metabolism

A

ALL CHEMICAL RXNS: Totality of an organism’s chemical rxns
Manage materials & Energy resources of a cell
EX: apoptosis, growing hair, being awake/alive, digestion

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2
Q

Metabolism RXNs

A

A (start molecule) -> RXN 1 (enzyme A) -> RXN 2 (enzyme B) -> RXN 3 (enzyme C) -> D (product)
Each RXN has own enzyme w/ diff shapes for diff functions
Enzymes dont get used up in RXN js help facilitate them

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3
Q

Catabolic Pathway

A

Release Energy by BREAKING down
complex molecules into simpler compounds (gain energy)
Ex: digestive enzymes break down food -> release Energy, Hydrolysis, weightloss pills

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4
Q

Anabolic Pathway

A

CONSUME Energy to BUILD complex
molecules from simpler ones
Ex: amino acids link to form muscle protein, Dehydration synthesis, Steroids

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5
Q

Energy

A

Capacity to DO WORK

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6
Q

Kinetic Energy

A

Movement, Energy associated w/ Motion
Ex: HEAT (thermal energy) is KE associated w/ random movement of atoms or molecules (how fast molecules are moving)

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7
Q

Potential Energy

A

Position-based ex: Someone at top of Building, STORED energy as a result of its position/ structure
Ex: Chemical energy is PE available for release

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8
Q

Energy can be…

A

ONLY converted from 1 form to another (Never created/destroyed)
Ex: chemical -> mechanical -> electrical (forms of PE)

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9
Q

Thermodynamics

A

Study of Energy Transformations that occur in matter

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10
Q

Closed System

A

Isolated from its surroundings
(ex: liquid in a thermos)

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11
Q

Open System

A

Energy & Matter can be TRANSFERRED between system & surrounding
Ex: organisms

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12
Q

1st Law of Thermodynamics (Conservation of E)

A

Energy of Universe = Constant
E CANT be created or destroyed only transformed/transferred

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13
Q

2nd Law of Thermodynamics

A

Every E transfer/transformation, increase Entropy (disorder) of universe
During every E transfer/ transformation, some
E is unusable, often LOST as HEAT

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14
Q

Free Energy

A

Part of system’s E available to perform work
ΔG = change in free energy

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15
Q

Exergonic RXN

A

Energy is RELEASED
Spontaneous RXN
ΔG < 0
Hydrolysis/Catabolic

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16
Q

Endergonic RXN

A

Energy is REQUIRED
Absorb Free energy
ΔG > 0
Dehydration Synthesis/Anabolic

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17
Q

Is a living cell at Equilibrium?

A

NO, constant flow of materials in/out of cell

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18
Q

What 3 types of WORK do cells do?

A

Mechanical, Transport, Chemical

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19
Q

What is coupling?

A

Cells MANAGE Energy resources to do WORK by Energy coupling
Using an Exergonic process (up) to drive an Endergonic one (Rollercoaster)

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20
Q

ATP

A

(Adenosine TriPhosphate)
Cell’s MAIN Energy source in Energy Coupling
Adenine + ribosomes + 3 phosphates (Ex: Nucleic Acids)

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21
Q

How does pH affect enzymes?

A

Changing the pH outside of this range will slow enzyme activity. Extreme pH values can cause enzymes to denature.

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22
Q

How does temperature affect enzymes?

A

Raising temperature generally speeds up a reaction, and lowering temperature slows down a reaction
Extreme high temperatures can cause an enzyme to lose its shape (denature) and stop working

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23
Q

How does Hydrolysis affect bonds between phosphate groups of ATP?

A

When the bonds between the phosphate groups are broken by hydrolysis → Energy is released

*Release of E comes from Chemical Change to State of Lower Free E, NOT in the Phosphate Bonds themselves

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24
Q

How ATP Preforms WORK

A

Exergonic release of Pi is used to do the Endergonic work of cell
When ATP is hydrolyzed, it becomes ADP (adenosine diphosphate)

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25
Transport Work
ATP phosphorylates Transport Proteins
26
Mechanical Work
ATP Binds non-covalently to motor proteins & then is HYDROLYZED -> Pi + ADP (walking protein)
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Catalyst
Substance that can change Rate of a RXN W/OUT being altered in the process (by lowering activation energy) ex: Enzyme = biological catalyst
28
Example of Catalyst
Sucrase BREAKS apart Sucrose enzyme, hydrolysis) Speeds up Metabolic RXN by lowering activation Energy (needed to start RXN by breaking bonds) W/O Enzyme = slower & less efficient
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Substrate Specificity of Enzymes
The reactant that an Enzyme acts on is called the enzyme's substrate The enzyme binds to its substrate, forming an enzyme-substrate complex
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Active site of Enzyme
Region on Enzyme where substrate binds
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Cycle of Enzyme
1) Substrates enters Enzyme's Active site 2) Substrates held in Active Site by weak interactions 3) Substrates -> converted to products 4) Products are released 5) Active site available for new substrates
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Induced Fit
Enzyme fits SNUGLY AROUND SUBSTRATE “CLASPING HANDSHAKE”
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Enzyme's Activity can be Affected by?
Temperature, pH, Chemicals bc Enzyme = protein & denatures sp ruins shape/function Ex: stomach = low pH (acidic) so can digest stuff by enzymes
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Cofactors
Nonprotein Enzyme helpers such as minerals (Ex: Zn, Fe, Cu) (bc body needs control)
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Coenzymes
Organic Cofactors (ex: vitamins)
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Enzyme Inhibitors
Competitive & Noncompetitive
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Competitive Inhibitor
Binds to the Active Site of an enzyme, competes w/ substrate (which will eventually win) & Enzyme will work again
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Noncompetitive Inhibitor
Binds to Another part of Enzyme -> changes shape -> Active Site is Nonfunctional (SHUTS ENZYME DOWN FOREVER) bc substrate wont ever bump out noncompetitive (changes shape/function) Until enzyme destroyed
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Regulation of Enzyme Activity
To regulate metabolic pathways, the cell switches on/off genes that encode specific enzymes
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Allosteric Regulation
DIFF SHAPE REGULATOR Protein’s Function at one site is affected by binding of a regulatory molecule to a separate site (allosteric site)
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Activator
Stabilizes Active Site
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Inhibitor
Stabilizes Inactive form
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Cooperativity
One substrate triggers shape change in other active sites → Increase catalytic activity
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Feedback Inhibition
Series of Enzyme & RXN need to turn off/on certain things for balance END PRODUCT of a Metabolic pathway shuts down Pathway by Binding to the Allosteric site of an enzyme Prevent wasting chemical resources, increase efficiency of cell EX: make stomach pepsin & acid only when eating to digest food
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Another Example of Feedback Inhibition
Threonine turns into isoleucine -> isoleucine shuts off threonine when enough bc wont have any more threonine (no waste) only makes more isoleucine when necessary no overproduction
46
How does chemicals denature enzymes?
competitive & noncompetitive inhibitors! MAINLY noncompetitive dont compete w/ substrate
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In Open Systems, Plant Cells Require E to Preform Work (Chemical, Transport, Mechanical)
1) E flows into ecosystem as sunlight 2) Autotrophs (self, eat) transform it -> chemical E (O2 released as byproduct) 3) Cells use some of Chemical E in organic molecules to make ATP 4) Extra E LEAVES as HEAT
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* Complex Organic Molecules
Take Catabolic (break down) pathway to make simpler waste products w/ less E & some E used to do work & dissipated as HEAT
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Cellular Respiration (Exergonic Releases E) - EQ:
C6H12O6(glucose) + 6O2(oxygen) → 6H2O(water) + 6CO2 (carbon dioxide)+ ATP (+ heat)
50
Photosynthesis (Endergonic, Requires/Absorbs E)
6H2O(water) + 6CO2(carbon dioxide) + Light (sun) → C6H12O6(glucose) + 6O2(oxygen)
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***** Why is Oxygen important?
TERMINAL ELECTRON ACCEPTOR
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Energy Harvest
Energy is released as electrons “fall” from organic molecules to O2 Steps: Food (Glucose) → NADH → ElectronTransportChain → Oxygen
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Steps of Energy Harvest
1) Coenzyme NAD+ = electron acceptor 2) NAD+ picks up 2e- and 2H+ → NADH (stores E) 3) NADH carries electrons to the electron transport chain (ETC) 4) ETC: transfers e- to O2 to make H2O ; releases energy (ATP!!!)
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NAD+ acts AS?
Electron Shuttle: energy from food, rips hydrogens & electrons from them
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Electron Transport Chain (ETC)
Gains Free E from hydrogens (high in lipids = lots of calories) Cellular Respiration: (Controlled steps) Slowly Releases Energy instead of explosion (uncontrolled) = staying alive
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Stages of Cellular Respiration
1) Glycolysis 2) Pyruvate Oxidation + Citric Acid Cycle (Krebs cycle) 3) Oxidation Phosphorylation (Electron Transport Chain & Chemiosmosis)
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Glycolysis
AKA Fermentation Glyco = Glucose, Lys = break (but glucose doesnt break stuff)
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Oxidative Phosphorylation
oxidizing stuff but using Hydrogen to tell phosphores to rejoin party etc + chemiosmosis MAKES WAY MORE ATP
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Glycolysis
“Sugar Splitting” Believed to be Ancient (early prokaryotes - no O2 available) Occurs in cytosol (no O2 before photosynthesis) Partially oxidizes glucose (6Carbons) TO GET 2 pyruvates (3Carbons) Net gain: 2 ATP + 2NADH (electron carrier) +2H+ Also makes 2 H2O water NO O2 required 2 Stages: Energy Investment Stage, Energy Payoff Stage produces 2 pyruvates for pyruvate oxidation
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Energy Payoff Stage
Two 3-Carbon compounds oxidized For each glucose molecule: 2 Net ATP produced by substrate-level phosphorylation 2 molecules of NAD+ →NADH (electron carriers) ADDS Phosphores by threatening (no energy needed)
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Substrate-Level Phosphorylation
Generate SMALL amount of ATP Phosphorylation: enzyme transfers a phosphate to other compounds P+ compound (inorganic) ADP + Pi (inorganic phosphate) → ATP GETS 2 ATP
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Energy Investment Stage
Part 1 Of Glycolysis Cell uses ATP to phosphorylate compounds of glucose
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Inputs & Outputs of Glycolysis
(Energy Investment) ATP -> phosphorylate glucose (Energy Payoff) Inputs: 2 NAD+ -> Output: 2NADH & 2H+ & 2H2O (Substrate level Phosphorylation) Inputs: ADP + Pi -> Output: 2 ATP Glucose(6-C) -> 2 Pyruvates (3-C)
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What are protons referring to?
H+ ions
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Stage 2: Pyruvate Oxidation
Pyruvate from glycolysis → Acetyl CoA (used to make citrate + Co2 CO2 & NADH produced occurs in mitochondria cristae, cytosol -> cristae
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Inputs & Outputs of Pyruvate Oxidation
Inputs: NAD+ -> Output: NADH & CO2 Input: Pyruvate -> Acetyl CoA (makes citrate)
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Citric Acid Cycle (Krebs)
Occurs in mitochondrial matrix from pyruvate: 2 Acetyl CoA → 2 Citrate → 6 Co2 released Net gain: 2 ATP, 8 NADH, 2 FADH2, 6CO2 (electron carrier NADH more efficient than FADH) ATP produced by substrate-level phosphorylation
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Inputs & Outputs of Citric Acid Cycle (krebs)
Inputs: 2 pyruvate -> 2 Acetyl CoA + 2 ocoxaloacetate (forms citrate) Outputs: 2 ATP, 8 NADH, 6CO2, 2 FADH2
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Stage 3: Oxidative Phosphorylation
Involves ETC & Chemiosmosis
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Electron Transport Chain (ETC) (in OP)
occurs in mitochondria inner membrane (phospholipid bilayer) produces 26-28 ATP (MOST of all stages) by oxidative phosphorylation via chemiosmosis
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Chemiosmosis in OP
H+ ions pumped across inner mitochondrial membrane H+ diffuse back into ATP synthase (protein) only if make ATP for use (ADP → ATP)
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ETC
Collection of molecules embedded in inner membrane of mitochondria Tightly-bound protein + non protein components Alternate between reduced/oxidized states as accept/donate e- DOES NOT make ATP directly Eases fall of e- from food to O2 2H+ +1/2 O2 -> MAKES WATER
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ETC (CATFISHING) in OP
NADH catfishes H+ bc carries e- from food that attracts H+ OUT to intermembrane space thru proton pumps in proteins to cross hydrophobic phospholipid bilayer
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Chemiosmosis: ENERGY COUPLING MECHANISM
Chemiosmosis = H+ gradient across membrane drives cellular work (ONLY lets IN H+ back into matrix if MAKE ATP) Proton-motive force allows ATP synthase (enzyme): MAKES ATP by Energy from proton (H+) gradient –flow of H+ back into matrix
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Overall View of Oxidative Phosphorylation
Uses chemiosmosis which couples proton gradient aka proton motive force -> drives H+ thru ATP Synthase to produce ATP -> uses E -> for redox RXN of ETC -> where e- passed down E levels to (H+ pumped from matrix to intermembrane space of proton gradient) -> terminal e- acceptor (O2) + makes H2O
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ATP yield per molecule of glucose at each stage of cellular respiration
Glycolysis: 2 ATP Cyctric Acid (Krebs cycle): 2 ATP Oxidative Phosphorylation: 26-28 ATP
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Anaerobic Respiration
Generate ATP using other e- acceptors besides O2 Final e- acceptors: sulfate (SO4), nitrate, sulfur (produces H2S) Ex: Obligate anaerobes: can’t survive in O2
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Facultative anaerobes
Make ATP by Aerobic Respiration (with O2 present) or switch to Fermentation (no O2 available) Ex: human muscle cells
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Fermentation
Glycolysis + Regeneration of NAD+ when O2 is NOT present pyruvate -> ethanol, lactate etc
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Types of Fermentation
Alchohol & Lactic Acid
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Alchohol Fermentation
Takes pyruvate -> Ethanol + CO2 ex: bacteria & yeast used for brewing, winemaking, baking
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Lactic Acid Fermentation
Pyruvate -> Lactate (lactic acid) ex: fungi, bacteria, human muscle cells used to make cheese, yogurt, acetone, methanol note: lactate build-up does NOT cause muscle fatigue & pain
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Glycolysis WITHOUT O2 (terminal e- acceptor)
FERMENTATION Keep glycolysis going by regenerating NAD+ Occurs in cytosol No oxygen needed Creates ethanol [+CO2] or lactate 2 ATP (from glycolysis)
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Glycolysis WITH O2 present (terminal e- acceptor)
RESPIRATION Release E from breakdown of food w/ O2 Occurs in mitochondria O2 required (final electron acceptor) Produces CO2, H2O & up to 32 ATP
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Various sources of fuel
Carbohydrates, fats & proteins can ALL be used as fuel for Cellular Respiration Monomers enter glycolysis / citric acid cycle at different points
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Phosphofructokinase (PFK)
Allosteric (alter protein activity) enzyme that controls rate of glycolysis & citric acid cycle Inhibited by ATP, citrate Stimulated by AMP AMP+ P + P →ATP
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Big Picture of Cellular Respiration
Energy -> Glycolysis (cytosol) -> substrate-level phosphorylation ALSO Glycolysis w/ O2 -> Pyruvate Oxidation -> Citric Acid (Krebs) Cycle -> substrate-level phosphorylation + -> Oxidative Phosphorylation (ETC & Chemiosmosis) Glycolysis anaerobic w/o O2 -Fermentation (cytosol) -> Ethanol + CO2 (yeast some bacteria) OR Lactic Acid
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Photosynthesis in Nature
Plants and other autotrophs are producers of biosphere
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Photoautotrophs
Use light E (sun) to make organic molecules (Eats energy from sun)
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Heterotrophs
Consume organic molecules from other organisms for E and carbon (eats other things)
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Photosynthesis
Converts light energy to Chemical Energy of food
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Chloroplasts
Sites of photosynthesis in plants
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Sites of Photosynthesis
Mesophyll, Stomata, Chloroplast
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Mesophyll
Chloroplasts mainly found in these cells of leaf
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Stomata
Pores in leaf (CO2 enter/O2 exits)
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Chlorophyll
Green pigment in thylakoid membranes of chloroplasts (absorbs sunlight)
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Photosynthesis EQ
6CO2 + 6H2O + Light Energy → C6H12O6 + 6O2 Redox Reaction: water is split → e- transferred with H+ to CO2 → sugar Remember: OILRIG Oxidation: lose e- Reduction: gain e-
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Tracking atoms through photosynthesis
Evidence that chloroplasts split water molecules allowed researchers to track atoms through photosynthesis
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Photosynthesis def
Light Reactions + Calvin Cycle “photo” “synthesis” (make) Endergonic (absorbs sun E) & Anabolic builds glucose
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Overall Photosynthesis Image
In chloroplast, light & H2O enter into thykaloid stacks w/ Chlorophyll (LIGHT RXNs) -> gives off O2 + gives ATP & NADH -> Calvin Cycle which absorbs CO2 & gives off CH2O (sugar) -> gives Light RXNs ADP + Pi & NADP+
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Light RXNs
Convert solar E to chemical E of ATP & NADPH
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Nature of sunlight
Light = Energy = Electromagnetic Radiation Shorter wavelength (λ): higher E Visible light - detected by human eye Light: reflected, transmitted or absorbed
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Electromagnetic Spectrum
the SHORTER the wavelength (purple, blue) the MORE E the HIGHER the wavelength (red) the LOWER E
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Interaction of Light w / Photosynthesis
BC Chloroplast/Chlorophyll = Green it absorbs EVERY color BUT green (REFLECTS GREEN)
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Photosynthetic Pigments
Pigments absorb different λ of light Chlorophyll – absorb violet-blue/red light, reflect green
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Chlorophyll a
(Blue-Green): light RXN, converts solar to chemical E
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Chlorophyll b
(Yellow-Green): conveys E to chlorophyll a
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Carotenoids
(Yellow, Orange): photoprotection, broaden color spectrum for photosynthesis
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Absorption Spectrum
Determines Effectiveness of Different Wavelengths for Photosynthesis Ex: Green = high transmittance but low absorption Blue = low transmittance but high absorption
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Action Spectrum
Plots Rate of Photosynthesis vs. Wavelength (absorption of chlorophylls a, b, & carotenoids combined)
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Engelmann
Used bacteria to measure rate of photosynthesis in algae; established action spectrum
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Which wavelengths of light are most effective in driving photosynthesis?
Purple/Blue & Red
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Light RXNs
e- in chlorophyll molecules are excited by absorption of light, gives off heat energy of e- -> photon -> chlorophyll (excited) gives off heat & photon fluorescence
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Photosystem
Reaction center & Light-harvesting Complexes (pigment + protein),
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2 Routes of e- flow for Light RXNs
A. Linear (noncyclic) electron flow B. Cyclic electron flow
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Light Reaction (LINEAR e- flow)
light E absorbed by Chlorophyll molecules thru photons is used to EXCITE/energize e- that power proton pumps (proton gradient) 1. E passed to reaction center of Photosystem II (protein + chlorophyll a) 2. e- captured by PRIMARY e- ACCEPTOR 3. Redox reaction → e- transfer 4. e- prevented from losing E (drop to ground state) 5. H2O is split to replace e- → H+, e-, O2 formed (ripping apart covalent bonds ) 6. e- passed to Photosystem I via ETC 7. E transfer pumps H+ to thylakoid space 8.ATP produced by photophosphorylation 9. e- moves from PS I’s primary electron acceptor to 2nd ETC 10. NADP+ reduced to NADPH
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Main Idea of Linear Light RXN
Use solar E to generate ATP (atp synthase & chemiosmosis) & NADPH to provide E for Calvin cycle
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Cyclic Electron Flow (Light RXN)
Uses PS I ONLY; produces ATP for Calvin Cycle (NO O2 or NADPH produced) Makes free ATP as long as sunlight, lots of E from protons (sun)
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Both Respiration & Photosynthesis do what?
Use Chemiosmosis to generate ATP, ATP synthase, photophosphorylation
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How is the formation of a proton gradient in light reactions used to form ATP from ADP plus inorganic phosphate by ATP synthase.
A proton gradient is created as the first ETC moves H+ ions through the cytochrome complex. ATP synthase then works like a gear to create ATP from ADP and inorganic phosphate.
121
Proton Motive Force generated by
1) H+ from water 2) H+ pumped across by cytochrome 3) Removal of H+ from stroma when NADP+ is reduced
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Calvin Cycle
In stroma Uses ATP & NADPH to convert CO2 to sugar Uses ATP, NADPH, CO2 Produces 3-C sugar G3P (glyceraldehyde-3-phosphate) used in cellular respiration
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3 Phases of Calvin Cycle
1) Carbon fixation 2) Reduction 3) Regeneration of RuBP (CO2 Acceptor)
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Phase 1: Calvin Cycle (Carbon Fixation)
3 CO2 + RuBP (5-C sugar ribulose bisphosphate) Catalyzed (cause/accelerated) by Enzyme Rubisco (RuBP (chemical change = enzyme) shapes CO2 to 5 chain the we cut it to get 6 3-phosphoglycerate
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Phase 2: Calvin Cycle (Reduction)
Use 6 ATP & 6 NADPH (changes to 6NADP+) to Produce 1 net: G3P (1 sugar)
126
Phase 3: Calvin Cycle - Regeneration of RuBP (CO2 Acceptor)
Use 3 ATP to regenerate 3 RuBP (creates 3 ADP)
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What does calvin cycle give back to Light RXNs?
NADP+ provides electrons to facilitate rxns ATP-> ADP releases energy to power metabolic processes
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Alternative mechanisms of carbon fixation have evolved in hot, arid climates
Photorespiration
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Photorespiration
Metabolic pathway which: Uses O2 & produces CO2 Uses ATP No sugar production (rubisco binds O2 → breakdown of RuBP) Occurs on hot, dry bright days when stomata close bc absorbs CO2 (conserve H2O) Why? Early atmosphere: low O2, high CO2?
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Evolutionary Adaptations
Problem with C3 Plants: CO2 fixed to 3-C compound in Calvin cycle Ex. Rice, wheat, soybeans Hot, dry days: partially close stomata, ↓CO2 Photorespiration ↓ photosynthetic output (no sugars made)
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C4 Plants
CO2 fixed to 4-C compound Ex. corn, sugarcane, grass Hot, dry days → stomata close (absorbs CO2) 2 cell types = mesophyll & bundle sheath cells (mesophyll: pyruvate fixes & grabs CO2 to hold onto it = pump to other cells)
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C4 plants (continued)
Mesophyll : PEP carboxylase fixes CO2 (4-C), pump CO2 to bundle sheath Bundle sheath: CO2 used in Calvin cycle ↓ photorespiration(plants eathing themselves bc not enough water), ↑sugar production (efficient for areas that are hot & dry dont lose as much water) WHY? Advantage in hot, sunny area
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CAM Plant
Crassulacean acid metabolism (CAM) NIGHT: stomata open → CO2 enters → converts to organic acid, stored in mesophyll cells DAY: stomata closed → light reactions supply: ATP, NADPH; CO2 released from organic acids for Calvin cycle Ex. cacti, pineapples, succulent (H2O-storing) plants WHY? Advantage in arid conditions
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Comparing C3, C4, CAM Plants
C3: C fixation & Calvin together, Rubisco C4: C fixation & Calvin in different cells, PEP carboxylase CAM: C fixation & Calvin at different TIMES, Organic acid
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Importance of Photosynthesis
Plant: Glucose for respiration, Cellulose Humans: O2 Production, Food source
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(Respiration!!!) Vs. Photosynthesis
RESPIRATION Plants + Animals Needs O2 & food Produces CO2, H2O & ATP, NADH Occurs in mitochondria membrane & matrix Oxidative phosphorylation Proton gradient across membrane
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Respiration Vs. (Photosynthesis!!!)
Photosynthesis Plants Needs CO2, H2O, sunlight Produces glucose, O2 ATP, NADPH Occurs in chloroplast thylakoid membrane & stroma Photorespiration Photophosphorylation Proton gradient across membrane
138
Overview Of Photosynthesis
Photosynthesis -> Light ENERGY stored in organic molecules Photosynthesis -> light RXN -> H20 Split -> O2 evolved Photosynthesis -> light RXN- > in which energized e- reduce NADPH + -> pass down ETC by mechanism -> chemiosmosis -> in process: photophosphorylation + -> ATP Photosynthesis -> Calvin Cycle -> Co2 fixed to RuBP -> C3 Phosphorylated & Reduce NADP+ using ATP to form G3P -> Regenerate RuBP using ATP + -> glucose & other carbs (G3P)
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Overview of Whole Photosynthesis Process
H20 & Light E enters Chloroplast (Chlorophyll) inside thykaloid stacks = light RXNS P(Photosyst 2, ETC, Photosyst 1, ETC) -> O2 released then ATP & NADPH transferred to Calvin Cycle: CO2 enters -> 3 phosphoglycerate -> G3P -> starch storage & sucrose export released, then turns into RuBP to give back ADP & NADP+ to LIGHT RXN