Cell structure and Functions
Basic Unit of life
Cell
Common features of all cells
Cytoplasm
Genetic material
Plasma membrane
Phospholipid bilayer
Semi-permeable membrane
DNA
RNA
Ribosomes
r RNA
Prokaryotes VS. Eukaryotes
Prokaryotes
Eukaryotes
single-cell organisms made of prokaryotic cells.
both single-cell and multi-cell organisms made of eukaryotic cells
cell membrane
Cytoplasm
Ribosome
Nucleoid
a region in the cell where DNA is located (not surrounded by a membrane)
Cell wall
Capsule
Flagella
Locomotion organelles of some bacteria
Rigid structure outside the cell membrane
Jelly like outer coating of many prokaryotes
Organelle
Nucleus
Cytoplasm, cell membrane, and ribosome
Three domains of life
Taxonomy
Domain
Eukarya
Arachae
Bacteria
consist entirely of a eukaryotic organism, which can be single-celled or multi-celled.
Include four main types of organisms: animals, plants, fungi, and protists
include a group of prokaryotes that are mainly characterized by their ability to thrive in extremeenvironments
include a diverse group of prokaryotes that are most notably recognized for their role in disease, health, important ecological relationships with plants and animals, and decomposing dead organic matter
Animal cell vs. Plant cell
Animal cell
Plant cell
Both plant and animals are made of eukaryotic cells.
Animal cells have centrioles and lysosomes, which are absent in most plant cells
Plant cells have a cell wall, a large central vacuole, and chloroplast
Endomembrane system
Nucleus
Chromosomes
Nuclear envelope
Nucleolus
Nuclear pores
Endoplasmic Reticulum(Smooth vs. Rough)
Smooth
Rough
lacks ribosomes
embedded with ribosomes
synthesize proteins
build the polypeptide chain
then modified and the finished protein is wrapped in a membrane
a transport vesicle, which carries the protein to its next destination.
Bound ribosomes
Free ribosomes
contains many important metabolic enzymes
synthesize lipids
fats, steroids, and new membrane phospholipids
Golgi apparatus
where proteins are modified, stored, and then sent to other destinations in new transport vesicles
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cisternae
trans face
Golgi is made of flattened membranous sacs called cisternae
cis face
(receiving end) vesicles from the ER fuse with the Golgi membrane, giving the Golgi its content
(receiving end) vesicles from the ER fuse with the Golgi membrane, giving the Golgi its content
Lysosome
a vesicle containing hydrolytic enzymes that are used to digest (break down) macromolecules. Not usually found in plants
Lysosomes also play an important role in apoptosis, programmed cell death
Typically lysosomes fuse with food vacuoles to break down the contents into simple sugars, amino acids, and other monomers
Vacuole
are large vesicles created by the ER and Golgi that perform a variety of functions
Food vacuoles
Contractile vacuoles
formed by phagocytosis, which is a process in which a cell engulfs materials from outside the cell
found in many freshwater protists, pump excess water out of cells
large central vacuoles
A common type of vacuole found in plant cells
store water, nutrients, pigments, and waste products
Advantage(s) of having membrane bound organelles
Minimized competing reaction
Increased surface area for reactios to occur
Mitochondria
found in nearly all eukaryotic cells, including plants, animals, fungi, and protists.
double membrane
intermembrane space
mitochondrial matrix
cristae
The inner membrane contains foldings
Overview of aerobic cellular respiration
If oxygen is available, sugar molecules (like glucose) are completely broken down into carbon dioxide and water in the mitochondria.
If oxygen is available, sugar molecules (like glucose) are completely broken down into carbon dioxide and water in the mitochondria.
Overall Reaction: sugar + oxygen → carbon dioxide + water + ATP
Chloroplast
intermembrane space
thylakoids
granum
stroma
thylakoid space
endosymbiotic theory
an early ancestor of eukaryotic cells engulfed an oxygen-using, non-photosynthetic prokaryotic cell, which evolved into the mitochondria
Later on, one of these cells may have engulfed a photosynthetic prokaryote, which evolved into the chloroplast
Components of the plasma membrane
fluid-mosaic model
Functions
Separates the internal cytoplasm from the external environment of the cell
Controls the movement of substances in and out of the cell
Allows cells to communicate with one another and interact with their external environment
selectively permeable
Structures
Protein molecules
Float around like icebergs in a sea of phospholipids
Cholesterol
Peripheral proteins
Integral proteins
amphipathic
controls the fluidity of the membrane
Carbohydrate Chains
cell’s “fingerprint”
Glycoproteins
Glycolipids
Channel Proteins
Carrier Proteins
Carrier Proteins
Receptor Proteins
Enzymatic Proteins
Junction Proteins
Small, hydrophobic
Polar or charged substances
surface-area-to-volume ratio
a large surface area to adequately exchange materials with their surroundings, and a small volume for materials to quickly travel within the cell.
concentration gradient
A particle moving along (or down) its concentration gradients moving from an area of high concentration to an area of low concentration
A particle moving against (or up)its concentration gradientis moving from an area of low concentration to an area of high concentration
Molarity
osmolarity
Passive transport
the movement of substances across the cell membrane withoutthe input of energy
Diffusion
Osmosis
Facilitated transport
aquaporins
dynamic equilibrium
Molecules still move both ways, but at equal rates
Solute concentration is uniform –no concentration gradient
Gas Exchange
Diffusion allows gas exchange to occur between the lungs, blood, and cells
Isotonic Solutions
Hypotonic Solutions
Hypertonic Solutions
Solute and water concentrations are equal on both sides of cellular membrane
lyse (rupture)
turgor pressurein plants
plasmolysis, causing the plant to wilt and die
Channels Proteins
Follows concentration gradient, moving from high concentration to low concentration. No energy is required
Carrier Proteins
allow specific molecules or ions to quickly tunnel through the cell membrane.
specific solutes bind to the protein, changing the protein's shape, which results in the release of the solute on to the other side of the membrane
water potential
Formula for water potential: Ѱ = ѰP+ ѰS
pressure potential (ѰP)
solute potential (ѰS)
measures how much pressure is exerted by the cell wall (due to turgidity) on the water inside a plan
Solute Potential Formula: ѰS = -iCRT
i= ionization constant
C = Molar Concentration (M) (moles/liters)
R = pressure constant (R = 0.0831 L∙bar/mol∙K)
T = Temperature in Kelvin (K = °C+ 273)
Active transport
the movement of substances against their concentration gradient, which requires the inputof energy
sodium-potassium pump
use ATP to transport 3 Na+ ions out of the cell and 2 K+ intothe cell.
electrochemical gradient
Membrane potential
a measurement of the charge difference across a cell membrane and is measured in millivolts
cotransporter
a membrane protein that actively transports a solute against its concentration gradient by utilizing the concentration gradient of another solute
bulk transport
ransported into and out of cells by vesicles
Vesicles are pieces of a phospholipid bilayer that encircle and transport large cargo
exocytosis
intracellular vesicle fuses with the plasma membrane to secrete its contents out of the cell
endocytosis
cells take in substances by forming vesicles around the material
Phagocytosis
Pinocytosis
Receptor-mediated endocytosis
Large, solid material
liquid or very small particles
specific to a certain type of molecule
Cellular Energetics
Enzyme
Energy
Metabolic Pathways
Catabolic pathways
Anabolic pathways
break down complex molecules into simpler compounds
uild complex molecules from simpler ones
Kinetic energy
Potential energy
energy of motion
Thermal energy is random movement of atoms or molecules
Heat describes thermal energy in transferfrom one object to another
the energy that matter possesses because of its location or structure
Thermodynamics
The 1stlaw of thermodynamics
Energy can be transferred and transformed but cannot be created or destroyed
The 2ndlaw of thermodynamics
Every energy transfer or transformation increases the entropy (heat) of universe
Entropy
Releasing heat = Increasing entropyof the universe
a measure of disorderor randomness
Chemical reaction
exergonic (=energy outward)reaction
releases energy
endergonic (=energy inward) reaction
requires a net input of energy and yield products that are rich in potential energy
Cellular respiration
Photosynthesis
ATP
powers nearly all forms of cellular work
structure
Cells manage energy resources by energy coupling, the use of an exergonic process to drive an endergonic one
phosphorylation
transferring a phosphate group to some other molecule
the phosphorylation of reactants provides energy to drive the endergonic synthesis of products.
biological catalyst
a chemical agent that speeds upa reaction without being altered in the process
Enzyme speeds up the reaction by lowering the activation energy (EA) barrier,
Hydrolysis of sucrose by the enzyme sucraseis an example of an enzyme-catalyzed reaction
Enzyme Structure
enzyme-substrate complex
active site is the region on the enzyme where the substrate binds
induced fit
Environmental Impacts on Enzyme Function
Temperature
Chemicals
pH
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Cofactors
non-protein helpers of enzymes
coenzyme
Competitive inhibitors
Noncompetitive inhibitors
Enzyme regulation
Allosteric regulation
proteins function at one site is affected by binding of a regulatory moleculeto a separate site
Activator–stabilizes active site
Inhibitor–stabilizes inactiveform
Cooperativity–one substrate triggers favorable conformational changes in other active sites => Increase catalytic activity
feedback inhibition
the end product of a metabolic pathway shuts down the pathway
It prevents a cell from wasting chemical resources by synthesizing more product than is needed
Oxidation-Reduction (Redox) Reactions
The transfer of electrons from one molecule to another
Electrons
hydrogen atoms
As glucose is broken down during cellular respiration, hydrogen atoms and pairs of high energy electrons are taken away from glucose and given to electron carrier molecules, NAD+ and FAD
NAD++ H++ 2e-→ NADH
FAD + 2H++ 2e-→ FADH2
Aerobic (oxygen-using) cellular respiration
the complete oxidation/breakdown of glucose.
Glycolysis–breaks down glucose into two molecules of pyruvate
Pyruvate Oxidation and the Citric Acid Cycle–completes the breakdown of glucose
Oxidative Phosphorylation–ETC & Chemiosmosis
Glycolysis consists of 10 reactions (each with its specific enzyme) that split one molecule of glucose (6-carbon) into two pyruvate molecules (3-carbon)
does not require oxygen.
energy investment phase
two G3P
energy harvesting phase
oxidized into pyruvate
Acetyl CoA
1)2 carbon dioxide are released
2)2 NADH are formed
3)Coenzyme-A (CoA) is added to the molecules forming 2 acetyl CoA
The citric acid cycle or Krebs cycle
oxaloacetate
citrate
○4 CO2○6 NADH○2 FADH2○2 ATP through substrate-level phosphorylation
Oxidative Phosphorylation
Electron Transport Chain (ETC)
Chemiosmosis
a series of protein complexes embedded in the inner membrane of the mitochondria
The proteins use the energy released from the electrons losing free energy to pump protons (H+) out of the matrix into the intermembrane space
Oxygen acts as the final electron acceptor
proton-motive force
ATP Synthase
the use of energy in a H+ gradient to drive the production of ATP
Decoupling Oxidative Phosphorylation from ETC
Oxidative phosphorylation can be decoupled from the electron transport chain if protons are allowed to diffuse back into the mitochondrial matrix without going through ATP synthase.
Anaerobic cellular respiration
Fermentation
consists of glycolysis plus reactions that regenerate NAD+, which can be reused by glycolysis
Alcohol Fermentation
Lactic Acid Fermentation
pyruvate is converted to ethanol
The first step releases CO2
The second step regenerates NAD+ and produces ethanol
Regenerated NAD+ is needed for the continuation of glycolysis
pyruvate is reduced by NADH, which regenerates NAD+
Forming lactateas an end product, with no release of CO2
Autotroph vs. Heterotroph
Autotrophs sustain themselves without eating anything derived from other organisms
Photosynthesis occurs in plants, algae, certain other unicellular eukaryotes, and some prokaryotes
Heterotrophs are unable to make their own food and must rely on compounds made by other organisms
They are the consumers in ecosystems and eat producers (autotrophs) as well as other heterotrophs
Photosynthesis
6 CO2+ 6 H2O + Light Energy → C6H12O6+ 6 O2
The chemical change during photosynthesis is the reverse of cellular respiration
Photosynthesis is a redox reaction
Electrons are taken from water (oxidation) and given to carbon dioxide (reduction)
Sites of Photosynthesis
chlorophyll
stomata
thylakoids
grana
stroma
CO2enters the leaf and O2exits
An Overview of Photosynthesis
light reactions
Calvin cycle
Sunlight
Light consists of discrete energy particles called photons
Pigments are substances that absorb certain wavelengths of visible light
Chlorophyll
absorption spectrum
Accessory pigments, such as chlorophyll band carotenoids
synthesize ATP and NADPH
photosystem
The energy transferred to the chlorophyll amolecules is used to boost an electron to a high energy level
Happens in stroma
Cell Communication and Cell Cycle
Cell Communication
Cell Cycle
Interphase
Mitotic Phase
G1Phase
S Phase
G2Phase
cell grows in size and begins doubling its number of organelles
cells replicate their DNA, producing two copies of each chromosome. The two copies are attached to one another as sister chromatids
cell continues to grow and prepares for cell division (M phase)
Mitosis
Cytokinesis
Prophase
Prometaphase
Metaphase
Anaphase
Telophase
Structure of Chromosome
sister chromatids
Chromosome
Chromatin
thread-like structures located inside the nucleus of animal and plant cells
the identical copies (chromatids) formed by the DNA replication of a chromosome, with both copies joined together by a common centromere
the substance within a chromosome consisting of DNA and protein. The DNA carries the cell's genetic instructions
kinetochore
Protein structure found at each sides of the centromere
Centromere
Narrow region where sister chromatids are joined are called centromere
Eukaryotes
Animal
Plant
Prokaryotes
binary fission
cell plate
cleavage furrow
Daughter cell
produced after a single cell undergoes cell division. During mitosis, one pair of daughter cells is created after one round of DNA replication.
diploid cell (2n)
Somatic cells
contains two sets of chromosomes (one set inherited from each parent)
Reproductive cells
How’s cell division used in life?
Cell division serves as a means of reproduction in unicellular organisms through binary fission. In multicellular organisms, cell division aids in the formation of gametes, which are cells that combine with others to form sexually produced offspring.
Regulations of cell cycle
Three check points
Cyclins vs. cylin-dependent kinases
Density dependent inhibition
G0 State
Apoptosis
G1 checkpoint
G0 phase
nondividing state
G2checkpoint
Checks if the DNA is properly copied during S phase
Usually repairs if there is wrong part, but if cannot it goes through apoptosis
M checkpoint
checks to make sure that all the kinetochores are properly attached to microtubules of the mitotic spindle before beginning anaphase
cyclins
cyclin-dependent kinases (CDKs)
enzymes that phosphorylate (add phosphates to) other proteins
CDKs are only activated when bound to cyclins,
cyclin-CDK complex
When cells get too crowded, they signal each other to stop dividing by inhibiting the CDK-cyclin complexes at the G1checkpoint
Programmed cell death
Cancer
Proteins
Tumor suppressor genes
Mutations in either of these genes can lead to uncontrolled cell division and tumor formation
Proto-oncogenes
code for proteins which promote the cell cycle in various ways
code for proteins that inhibit the cell cycle and promote apoptosis in various ways
Cell Communication in single vs. multicellular organisms
In single-celled organisms, signal transduction pathways influence how the cell responds to its environment
In multicellular organisms, signal transduction pathways coordinate the activities within individual cells that support the functionof the organism as a whole
Similarities in signal transduction pathways in both prok and euk, organisms
Cell signaling, in both prokaryotes and eukaryotes, occurs via signal transduction pathways
signal transduction pathway
a series of steps by which a signal on a cell’s surface is converted into a specific cellular response
Three stages of cell signaling
Reception
Transduction,
Response
ligand
produces a response in a cell
target cells
Only cells with the necessary receptors (target cells) can respond to a signal
Intracellular receptors
Membrane receptors
Their ligands are smaller nonpolar and can diffuse across the membrane
large or polar ligands that cannot diffusethrough the membrane
Ligand-Gated Ion Channels
G Protein-Coupled Receptors
closed channel proteins that change shape and open when a ligand binds
A G protein-coupled receptor (GPCR) is a plasma membrane receptor that works with the help of a mobile membrane protein, called a G-protein
The binding of a ligand to a receptor will trigger the start of a signal transduction pathway within the cell
Like falling dominoes, the initial receptor protein activates another protein, which activates another, and so on, until the protein producing the response is activated
Phosphorylation
dephosphorylation
Protein kinases
transfer phosphatesfrom ATP to proteins, a process called phosphorylation
phosphorylation cascade
Protein phosphatases
Opening of ion channels
Alterations in gene expression
Regulation of enzyme activities
Examples of signal disruptions
Conditions where signal transduction is blocked or defective can have deleterious effects
The poison produced by anthrax bacteria binds and inhibits the function of adenylyl cyclase, the protein that converts ATP to cAMP
Anthrax
Diabetes
Types of Cell communication
Direct Contact Communication
Short Distance Communication
Long Distance Communication
juxtacrine signaling
autocrine and paracrine signaling
endocrine signaling
Quorum Sensing
Morphogens
Plaque
Insulin
Human Growth Hormone
Homeostaisis
Negative vs. Positive feedback Mechanisms
refers to the ability of an organism (or a cell) to maintain a stable internal environment despite changes in external conditions
dynamic homeostasis
Organisms use feedback mechanisms to maintain their internal environments and respond to external environmental changes
Negative
Positive
maintain dynamic homeostasis for a particular condition (variable) by regulating physiological processes, and returning the changing condition back to its target set point
Thermoregulation
amplifyresponses and processes in biological organisms
Childbirth
Ripening of Fruit