Cells

Cell structure

Animal cells

Plant cells

Cells Theory:

All cells are either;
Prokaryotes or Eukaryotes

cells are the basic unit of
any living organism.

Prokaryotes

Eukaryotes

Prokaryotic cells are only found in bacteria,
everything else has Eukaryote cells

  • No Nucleus
  • DNA is 'free floating'
  • No membrane bound organells
  • has a true Nucleus ( = enclosed in a membrane)
  • has a variety of membrane bound organelles
  • more complex cells

Cell structure refers to the cells shape and size

All linked to
the cells function

  • Cell structure
  • type of organelles
  • numbers of organelles

Animals, Plants, Protozoa & Fungi
all have Eukaryote cells

Examples of different
types of cells:


  • muscle cells
  • palisade leaf cells
  • nerve cells
  • root cells
  • fat cells

organelle numbers in the cells depend
on the cells job / function and how
quantity / energy demanding they are

All living things are made up of cells
(so cells are the building blocks of life)


  • using cells plants, animals, etc. can build
    specialized structures (e.g. tissues or organs) ,
    for a variety of purposes
    (this is what gives us the diversity of living things)

The Cell Theory:

Cells are the smallest units of life

All living things are made up of cells

All cells come from pre-existing cells

They have their hereditary information
in one large (long) molecule of DNA

  • they have only one chromosome

They have their hereditary information
stored in multiple chromosomes surrounded by
a Nuclear envelope made up of two membranes


  • it is stored in the nucleus, in multiple chromosomes

(Both have an outer plasma membrane
that isolates the cell from external environment)

cell processes

Photosynthesis

Cell Cycle

Enzyme Activity

Cellular Respiration

Transport
(across a cell membrane)

Mitosis

Organelles:

  • Plasma membrane
  • Cell wall
  • Centriole
  • Chloroplast
  • Cytoplasm
  • Cytoplasmic Reticulum (ER)
  • Golgi body / Apparatus
  • Lysosomes
  • Mitochondria
  • Nucleus
  • Robosomes
  • Vacuole

Animal cells are enclosed by a plasma membrane
but don't have a cell wall
(other Eukaryote cells do have a cell wall)


  • because they don't have a (rigid) cell wall,
    animals have been able to develop more diversity
    of cell types, tissues and organs,
    (in a way plants never could)

Plant cells are enclosed by both
a plasma membrane & a cell wall

(the cell wall is for structure and protection,
plants don't have bones like animals!)

  • All the organelles (including the nucleus)
    are enclosed / bound by a membrane

Animals have specialized cells that form
nerves and mussels / tissues, so they have mobility


(mobility = the ability to move about
using specialized muscle tissues)

All organelles (including the nucleus)
are enclosed / bound by a membrane

  • Plants are Non-motile (can't move),
    but they do grow towards the light

Plants can manufacture their own food, because
they have a unique organelle called Chlorophyll

features of the pant cell

Chlorophyll:

  • Gives plants their 'green' colour
  • Enables the plant to perform photosynthesis

Nucleus

Nucleolus

Nuclear envelope / membrane

  • contains most of the cells DNA (chromosomes)
  • controls all metabolic activity of the cell
  • carries inherited patterns for a cell
    from one generation to the next
  • controls cell division
  • contains nucleoplasm
  • Dense body consisting of RNA & proteins
  • Ribosomes are ensembled here

structure:

function:

  • Double layered membrane that envelopes
    the contents of the nucleus
  • Outer membrane is continuous with / connects
    to the membrane of the rough ER
  • Like the rough ER, it has Ribosomes attached to the surface
  • In order for the cells to function properly there is a continuous amount of traffic that must cross through the nuclear envelope / membrane -
  • RNA (Ribonucleic acid = half the DNA double helix) & Robosomal sub units

Bacteria Cell

= Unicellular organisms (= only one cell)

  • Have a Prokaryotic cell structure

the cells are surrounded by...

a Cell Wall

main function = prevents the cell form rupturing when the water pressure inside the cell is greater than outside the cell


also...

  • maintains the cells shape
  • provides an anchorage place for the flagella

the cell wall of bacteria are more rigid & complex
than a plant cell wall

Flagella

= a long appendage of the bacteria that moves / propels it

  • not all bacteria have flagella, but those
    that do are said to be Motile

Motile = Bacteria that have the ability to move on their own


(advantage = enable the bacteria to move towards favorable conditions & away from unfavorable / adverse conditions)

  • If we didn't have enzymes increasing the rate of chemical reactions
    ... our metabolism would be too slow for life to 'exist'...
    ... just as we need cell as we need cell transport to provide and remove substances, we need enzymes for those cell processes to actually happen

metabolism = all the chemical reactions in cells, these are all controlled by enzymes

Collision theory in
respect to Enzymes:

For any chemical reaction, molecules must collide & collide with sufficient energy (activation energy), and correct orientation, so that the chemical bonds can change and a reaction occur

  • enzymes can hep ensure correct orientation,
    by correcting the position of molecules
    ...as well as decreasing the amount of activation energy required

Activation energy = the amount of energy a reaction must overcome in order to occur


  • enzymes lower the activation energy by destabilizing bonds in the substance they are more reactive
  • Enzymes can 'bring' molecules together
    or 'separate' them apart

Reactions can be either....

Catabolic

Anabolic

= Makes larger molecules out of smaller molecules
( - By joining things together)

= Breaks down large molecules into smaller pieces
( - By separating substances)

Enzymes

(Enzymes are specific - they only catalyse one kind of reaction)


  • they are usually named after the substance they act upon
  • often have the suffix "-ase"

Definition:

Enzymes = proteins that act
as biological Catalysts

A Catalyst = something that speeds up a
reaction without being used up in the reaction itself

Enzymes = a type of globular protein


  • (and like all proteins) Enzymes = long chains of amino acids
  • there can be 100's or 1000's of amino acids making up each enzyme

Enzyme structure / shape:

Amino Acids:

  • Amino acids are joined together with peptide bonds
    forming a polypeptide chain

Depending on the different sequence of Amino Acids,
this determines the different enzymes
... hence determines the specific shape the enzyme folds into


  • the shape of an Enzyme = determines its function

Shape:**

Certain Amino acids within the polypeptide chain will
interact with each other & can form either ...


- Hydrogen bonds
- Di-sulfide bridges

These two kinds of bonds are between sections of the enzyme and hold it together in the specific shape
... this is what gives the enzyme its 3D structure

the Active site:

  • The most important part of an enzymes structure

= The area on the enzyme where the chemicals
involved in the reaction, bind together

  • The shape of an Active site is very specific
    ... it corresponds of the shape of the substrate
    that bonds to it

substrates = the chemicals that bond to the enzymes active site (what is actually reacting)


  • An Enzyme can only catalyses one kind of reaction
    ... they are highly specific because of the unique shape of the active site

Factors effecting Enzyme reaction;

  • While substrates change during the reaction by becoming products. enzymes aren't used up or broken down in the reaction
    ... they can catalyses reactions many, many times
    (before they eventually break down/ denature)

PH:

Concentration

Temperature

the higher the temperature = the faster the enzymes can catalyse a reaction


... because the particles move faster & collide more often

  • However above 40 - 45 degrees, enzymes will denature
    ... & there is a sudden drop in reaction rate

(enzymes can still work at lower temperatures but the reaction is just slowed down, however they will denature at a too higher temperature)

  • Optimal temperature = when the reaction rate is the fastest

Enzyme shape is maintained by weak hydrogen bonds,
these can be broken by a number of things (e.g. high temperatures)
... broken bonds changes the shape of the enzyme = this is called Denaturing


  • When an enzyme denatures it can no longer perform its function and catalyse the reactions and longer, it is 'dead'

Enzymes will denature at either too low or too high PH

  • different enzymes have different optimum PH's

Substrate concentration:

Rate of reaction will increase as substrate concentration increases
... until all enzymes are 'saturated'


the point where the reaction stops = the point of saturation


  • a saturated solution = when there are no left over enzymes to catalyse the reaction
    (when there are no free reactants left to react)

Enzyme concentration:

Rate of reaction will keep increasing as
numbers of enzymes increase
(so long as there is unlimited substrate)

  • if the substrate 'runs out', then then increasing enzyme numbers won't increase the rate of reaction any further.

Co- factors


= many enzymes need
another molecule to assist them


= they complete 'empty spaces' on the the active site
in order to make it functional

  • they can be organic ions or inorganic ions

Inhibitors:

= prevent enzymes from catalyzing reactions
(they 'stop' reactions)

inhibitors can be:

Reversible or Irreversible

Competitive or Non-Competitive

Competitive inhibitors

= Compete with a substance to bind to the active site


... this means that if they win, the substrate can't bind
to the active site
as the inhibitor is already there

  • They tend to be irreversible and are therefore poisons

Non - Competitive inhibitors

= Bind to a different part of the enzyme (not the active site)


... this alters the shape of the Enzyme and its Active site
... therefore binding of the substrate to the active site
is no longer possible

- usually reversible (temporary)

  • this can be used by cells as a way of controlling rate of reaction

DNA replication:

Each cell needs its own copy of DNA,
...so DNA needs to be able to make copies of itself
= Self replication

Steps:

Replication has a series of steps all controlled
by enzymes & all requiring energy from ATP

1 - Double helix unwinds


2 - the weak hydrogen bonds are broken
by the enzyme 'helicase' (unzipping)


3 - New pre-made nucleotides assemble opposite each strand
& use energy (ATP) to join together,
using the enzyme 'polymerase'


4 - Two identical DNA molecules are formed
& they rewind into the twisted double helix

  • The Complementary base pairing mechanism
    is how DNA replicates (C-G) (T-A)

DNA replication = Semi- conservative

  • There are 2 identical DNA molecules made, but...
    ...each half of the original DNA strand gets a new copy of itself
    ... so each of the 2 cells will end up with a double helix, where one strand is new and one strand is the original


  • This is done as it is quicker and safer as it is
    less likely to make a mistake

Many sections are copied at once because it is faster

  • leading strand = copied directly along the whole strand
  • lagging strand = copied in sections & then joined
  • While chromosomes are long unraveling threads,
    they condense into smaller shapes for mitosis

stages = I.P.M.A.T.C.

I = Interphase
=chromosomes replicate to form 2 sister chromatids
held together by a centromere


(this isn't technically part of mitosis,
but another part of cell cycle)

P = Prophase

  • The Chromatids shorten & thicken
  • Nuclear membrane disappears
  • Spindle fibers develop

M = Metaphase
= spindle fibers help Christmastides line up at the equator

A = Anaphase = Centromer split & individual chromatides **move towards 'poles**' pulled by spindle fibers

T = Telophase = At the poles, new nuclear membranes form around each group of chromatidss and
the plasma membrane begins to constrict

C = cytokineses = cytoplasm devides in two and
2 separate cells are formed

cell cycle:

Cell cycle consists of 4 stages:
G1, S, G2, M

Interphase

Interphase is the stages:
G1,G2 and S

G1 = 1st Gap phase

The cell...


  • Performs its function (job)
  • Rows in size
  • makes what it will need for DNA replication

S = Synthesis Phase

  • the cell copies DNA, chromosomes are duplicated
    (DNA replication)
  • Cells spend **90% of their
    time in the Interphase**

G2 = 2nd Gap phase

The cell....

  • Grows more in size
  • Performs its function (job)
  • Makes what it needs for mitosis

M = Mitosis

  • Makes new duplicated cells for
    growth & repair & replacement
  • The previously duplicated DNA devides into 2 new cells
    & then the cytoplasm devides (Cytokineses)

Why does cell division occur:

= For Growth, repair, & replacement

  • Cell division is most rapid during growth,
    not everyday life
  • cells also replace themselves when they are worn out
  • different cell types divide at different rates
    depending on how easily they were out

= Cell division into 2 identical daughter cells


  • Every cell needs its own complete copy of DNA
    (witch are formed during the synthesis phase)
  • For growth, repair & reconstruction of old or worn out cells

DNA structure

DNA = Deoxyribose Nucleic Acid

  • It is a large molecule
  • In the form of chromosomes it carries the 'genetic code' (information to make everything happen)

It is arranged in a twisted double helix
(has 2 connected strands twisted together)


  • The 2 sides are strongly bonded together
  • Made of alternating sugar & phosphate groups
  • The 2 strands of DNA run anti-parallel (upside down)
    to each other

Nucleotide

= 1 phosphate + 1 sugar +1 base

Bases

Adenine (A) --- Thymine (T) = 2 hydrogen bonds
Cytosine (C) --- Guanine (G) = 3 hydrogen bonds

  • The bases are held together by weak hydrogen bonds
    (they only bond to the corresponding base
    due to their specific chemical structure)

where does photosynthesis occur;

  • In the leaves (the green bits) in the chloroplasts
  • In the outer parts of stems & in their leaves

- leaves have adaptations to maximize rate of photosynthesis

Structure of a leaf:

wax cuticle:
leaves have a protective top waxy layer = to prevent damage and water loss

Upper epidermis:
the next layer is transparent
... so it can let light through to the palisade cells

Palisade cells

  • The palisade cells have the most chloroplasts
  • they are at the top of the leaf to catch
    as much sunlight as possible

Mesophyll
The Mesophyll layer has some cells with chloroplasts,
... but also lots of space for CO2

Stroma
= holes in the bottom layers of the leaf where CO2 pass through

  • controlled by the guard cells to limit water loss

Chloroplasts:

Chloroplasts are large oval organelles

  • they are located in in Palisade & Mesophyll cells in leaves
    (& in cells on the outer layers of green stems)

structure:

  • Inside the the Chloroplasts there are flat membranes
    = Thylakoids
    ... these are arranged in stacks called Grana
    (1 stack = Granum)

...Inside the Thylokoid membranes there is Chlorophyll

... Inbetween the Grana stacks there is
a fluid Matrix called Stroma

The process of photosynthesis

  • There are 2 chemical pathways that make up photosynthesis
    ... these 2 pathways** take raw materials (H2O & CO2)
    & rearrange them**
    ... then they join together to make Glucose
    (and a waste product of Oxygen)

Photosynthesis requires:

  • Solar energy / light from the sun
  • Chlorophyll
  • Enzymes

Overall word equation:
Carbon Dioxide + Water = Glucose + Oxygen

The 2 chemical pathways:

2nd Chemical pathway:
(The Calvin Cycle)

The 1st Chemical pathway:

= a light dependent reaction

  • Happens in the Thylokoid membranes of Chloroplasts

Firstly:
Chlorophyll is a pigment that can absorb light (In the thylokoids)

  • Electrons in the Chlorophyll are 'excited' by solar energy ... these high energy electrons are passed along a chain of molecules
    ... & the energy is used to make ATP
    ... the electrons are then returned to the Chlorophyll

Secondly:
Water is split into hydrogen & oxygen ...

  • Oxygen is not needed so it is released as a gas
  • Hydrogen is transferred by a carrier molecules
    into the 2nd pathway

= A light independent reaction

  • Happens in the Stroma
  • Hydrogen (from the 1st pathway), and CO2
    go into a complex biochemical cycle with lots of rearrangement
    ...until glucose forms as the final product

Glucose is used for:

  • Respiration
  • Stored as starch
  • Used to make cellulose, fats & Amino Acids

Rate of Photosynthesis:

3 factors can affects
the Rate pf photosynthesis

other (minor) factors that influence the rate:

  • Water
    = stroma close to reduse water loss
  • Mineral ions
    = magnesium in chlorophyll molecules in the chloroplast cells
  • Wavelength of light
    = green is not absorbed but all other light is
    (hence leaves are green as the green light
    reflects off them into our eyes)
    = blue and red light cause the pigment to be the most active

Temperature

Light intensity

CO2 concentration

click to edit

The rate is determined by what is needed for the process;

  • Enzymes
  • Light
  • CO2
  • H2O
  • Temperature
  • The rate is measured by either the amount of...
  • O2 produced
  • CO2 used up

Increasing Temp. = increasing rate of photosynthesis
up to the optimum rate
Optimum rate = fastest rate

  • If temp. is too high or low
    = the enzymes denature
    = photosynthesis stops

Bright light intensity
= increase rate of photosynthesis up to a maximum

Above the maximum, there will be no further effect
when light intensity increases.
this is either because:

  • light absorbing pigments are saturated
  • temperature of CO2 concentration are limiting the Calvin cycle (witch is a light independent reaction)

CO2 concentration
= increases the rate o photosynthesis to a maximum

After maximum, no further increase will occur
because the Calvin cycle is saturated
(or by limiting the temp. or light intensity)

Mitochondria:
(intro to respiration)

Respiration occurs in the mitochondria of cells,
in All organisms, All the time

Mitochondria = The 'powerhouse' of the cell

In cells that require a lot of energy...

  • there are more mitochondria
  • & more Cristae (membrane folds) within these mitochondria.

they....

  • Are elongated oval shape
  • Have inner membranes that are in fold called Cristae
    (these provide large surface area for the reactions)
  • The space in between the Cristae = the Matrix
    (this has many enzymes and a gel)
  • All animal cells have more mitochondria than Plant cells...
    (this is because usually they have a higher energy demand)

Animal cells that have particularly high energy demands:

  • muscle
  • heart
  • sperm
  • liver
  • kidneys
    (basically any cell that 'moves')
    these cells can have up to 1000 mitochondria within the one cell!

Respiration is the process of breaking down glucose of from ATP (heat is a bi-product)

ATP = the energy molecule of all living organisms

= it fuels all the reactions of thee cell(s)


some of theses reactions include:

  • Active transport
  • Making molecules (amino acids/ proteins, etc.)
  • Movement (muscle contractions, cilia, etc.)

Respiration can be:

Aerobic
(with oxygen)

Anaerobic
(without oxygen)

ATP

ATP = Adenosine Tri Phosphate
= made by adding a phosphate
(has a higher energy band than ADP)

ADP = Adenosine Di Phosphate
= only has 2 P's
= high energy bond
(but less energy than ATP)

  • when a cell needs energy the (ATP) higher energy bond
    is broken witch releases energy
    ATP to ADP
  • Requires oxygen for the complete breakdown of;
    glucose = CO2 + Oxygen

It has 3 steps:
1- Glycolysis
2- Krebs Cycle
3- Electron transfer Chain

  • 38 ATP overall

Krebs Cycle:

Electron Transfer Chain:

Glycolysis:

  • Occurs in the cytoplasm

(splits the glucose )
Glucose = 2 pyruvate molecules
C6H12O3 = 2C3H4O3

  • 2ATP are made

( aka; the citric acid cycle)

  • ocures in the matrix

Pyruvate produced in step one (Glycolysis) now goes into
a complete Biochemical pathway
& extensive rearrangement changes

Pyruvate = CO2 + H

H = is picked up by the 'carrier' molecules &
taken to the last step

CO2 = A Waste product
= diffuses out of the mitochondria and then out of the cell

(aka; Hydrogen transfer chain / Respiratory chain)

  • Occurs in the Cristae
    (inner membrane of mitochondria)

H = H+

  • H atom becomes H+ ion, as an electron is removed
  • the high energy electrons are passed along a chain of molecules along/ of the Cristae...
    = as they bounce along, there energy is used to change ADP to ATP...
    = at the end of respiration the electrons are returned to the H+ ions
    when they combine with O2 atoms to create H2O
    (O2 + H+ = H2O)

  • This stage makes most of the ATP for the cell
    (in total) one molecule of glucose = 38 ATP molecules
    36 from 3rd step
    2 from 1st step

Respiration equations:

Overall Word equation:
Glucose + oxygen = Carbon Dioxide + water + 38 ATP + Heat

Overall Formula equation:
C6H12O6 + 6O2 = 6CO2 + 6H2O + 38ATP + Heat

  • Only requires glucose (no oxygen)

Only stage one occures (Glycolysis)...
so only 2 ATP are made (overall) from each Glucose
(requires a lot less ATP than Aerobic respiration)

( happens in prolonged exercise)

Glucose = Pyruvate = lactic acid + 2 ATP

  • Some small organisms (e.g. yeast and bacteria)...
    Use Anaerobic respiration as their whole way of life
  • although it only makes 2 ATP, this is enough for these organisms

e.g. (in yeast)
Pyruvate molecules broken down to Ethanol + CO2

  • this process is fermentation (Ethanol = an Alcohol)

Rates of Respiration

Affected by;

  • Temperature
  • Energy demands

The rate increases until...
the temp. increases to the optimum temp. for enzymes
(37 degrees for humans)


Too high above optimum temp. = The Enzymes denature

  • reaction stops
  • organism dies

Energy demands:

As the Demands of the cell increases
= The Rate of respiration increases
(e.g. muscle cell demands increase when exercising)

Amount of O2 required & hence amount of Co produced
= breathing rate increases to compensate,
= so respiration has an increased rate

Parts include:

  • cell membrane
  • Passive vs. Active
  • Diffusion + active diffusion
  • Osmosis
  • Ion pumps
  • Bulk Transport
  • Surface area to volume ratio

Cell Membrane
(same in plants & animals)

Passive vs. Active
(transport)

All cells have a very thin
boundary between the cell and its environment

  • this maintains the different concentrations
    of substances within the cell
  • It is made of Phospholipids
    = A bi-layer (2 layers)

The phosphate heads = water loving = Hydrophilic
The Lipid tails = water hating = Hydrophobic

  • The membrane is fluid, so it can reassemble itself

The membrane around the cells ...
= same kind of membrane around the organelles
(membrane bound organelles)

Cell membrane = Semi-permeable
= some things can get thorough and others can't
(only small non-charged things can get though,
big or charged things can't get through)

Active

Passive

doesn't require energy

Types of passive transport:

  • Diffusion
  • Facilitated diffusion
  • Osmosis

Requires energy
(as the particles are moving against
the concentration gradient)

Types of active transport:

  • Ion pumps
  • Anything that goes against
    the concentration gradient
  • Bulk transport (simple)

click to edit

Facilitated diffusion:

  • Needed for large molecules & charged molecules that are moving with the concentration gradient
  • The process uses large Proteins that go right through the membrane as a pathways for the particle to travel

= these are called Chanel proteins or Carrier proteins
(& they are specific to molecules)

Osmosis:

Diffusion

Definition:


The Random movement of particles,
resulting in a net Movement of a substance from an
area of high concentration to an area of low concentration, until the concentrations become the same (Equilibrium)

The difference in concentrations between 2 areas
= The Concentration Gradient

  • Moving with the gradient = High to Low (Passive transport)
  • Moving Against the gradient = Low to high (Active transport)

Moving from a high to low concentration gradient
= moving down the concentration gradient

Diffusion is faster if...

  • The gradient (difference) is greater
  • Smaller particles
  • Higher temperature
  • H2O, O2 & CO2; all diffuse freely across a membrane
    with a concentration gradient
  • Osmosis is a special class of diffusion
    as it only diffuses water

= The movement of water across a semi-permeable membrane

From an area of high concentration to low concentration
(as with all passive transport)

Hypotonic = low Tonicity = few H2O particles = Dilute = High water potential / concentration


Hyertonic = high Tonicity = Lots of H2O particles = Concentrated = Low water potential / concentration
Isotonic = Same tonicity in and our of the cell

Ion pumps

Bulk Transport

  • Moving large 'amounts' by folding membranes called Cytosis

Exoocytosis = Adds to the cell membrane
Endocytosis = Uses up some cell membrane

Pinocytosis = 'cell drinking' = fluids
Phagocytosis = 'cell eating' = Solids

  • ENERGY is needed
    (as in all active transport)
  • The membrane is constantly being altered
    (added to or taken away from)...
    this is to allow 'things' in and out

= Specific carrier/transport proteins in the plasma membrane
that carries out active transport

  • Harness the energy of ATP...
    to pump molecules / ions from low to high concentration

Surface Area: Volume
(Ratio)

  • Cell size and shape relates to its need for diffusion
  • Cells need to be small (volume) in order to diffuse substances both in & out of the cell
  • When cells grow their volume increases at a
    faster rate than their surface area
    (cytoplasm / organals grow at a faster rate than the membrane)

Surface area = Squared (x2)
Volume = Cubed (X3)

When there is less membrane and more distance to
the center of the cell
, the cells compensate by either;

  • Dividing
  • Being long
  • being Bioconcave
  • Having Villi

The greater the Surface Area to volume ration
= transport/ diffusion is more effective