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ABHAYS A-LEVEL BIO FLASHCARDS > M2, C3 Biological Molecules > Flashcards

M2, C3 Biological Molecules Flashcards

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Biology 101 flashcards
1
Q

what are all living things primarily made of

A

carbon
hydrogen
oxygen
nitrogen

phosphorus and sulphur are also important

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2
Q

whats a covalent bond

A

when two atoms share a pair of electrons. present in the outer orbitals of the atoms

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3
Q

what are the bonding rules for carbon, nitrogen, oxygen and hydrogen?

A

carbon - 4 bonds
nitrogen - 3 bonds
oxygen - 2 bonds
hydrogen - 1 bond

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4
Q

whats the displayed formula for:

a) carbon dioxide
b) hydrogen
c) water

A

a) O=C=O
b) H-H
c) H-O-H

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5
Q

what’s a cation

A

when an atom or molecule loses one or more electrons and it gets a net positive charge

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6
Q

what’s an anion

A

when an atom or molecule gains electrons and it gets a net negative charge

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7
Q

what are ions in solutions called

A

electrolytes

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8
Q

what is an ionic bond

A

when an atom loses or gains electrons
forms positive or negative ions
held together because of the attraction of opposite charges

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9
Q

what are the uses of calcium ions?

A

nerve impulse transmission

muscle contraction

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10
Q

what are the uses of sodium ions?

A

nerve impulse transmission

kidney function

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11
Q

what are the uses of potassium ions?

A

nerve impulse transmission

stomatal opening

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12
Q

what are the uses of hydrogen ions?

A

catalysis of reactions
pH determination
chemiosmosis

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13
Q

what are the uses of ammonium ions?

A

production of nitrate ions by bacteria

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14
Q

what are the uses of nitrate ions?

A

nitrogen supply to plants for amino acid and protein formation

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15
Q

what are the uses of hydrogen carbonate ions?

A

maintenance of blood pH

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16
Q

what are the uses of chloride ions?

A

electrolyte balance

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17
Q

what are the uses of phosphate ions?

A

cell membrane formation
nucleic acid
ATP formation
bone formation

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18
Q

what are the uses of hydroxide ions?

A

catalyst of reactions

pH determination

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19
Q

define polymer

A

long chain molecules made by linking monomers.

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20
Q

give examples of monomers

A

glucose, amino acid, nucleotide

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21
Q

give examples of polymers

A

glycogen, protein, DNA, starch

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22
Q

what does it mean saying a water molecule is polar

A

the oxygen atom is slightly more negative and the hydrogen atoms are slightly more positive
this means it forms hydrogen bonds

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23
Q

what are the 5 properties of water

A 
High specific heat capacity- stable temp for aquatic organisms 
High latent heat of vaporization- sweat 
Good solvent- transport of molecules 
Ice less dense than water 
Cohesive & Adhesive
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24
Q

what does the universal solvent property in water mean

A

water can dissolve many substances

enables many chemical reactions to occur in the cell cytoplasm. And enables substances to be transported eg. xylem

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25
Q

what does the liquid at room temp property in water mean

A

provides a liquid environment both within cells and for aquatic organisms

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26
Q

what does the specific heat capacity property in water mean

A

water has a high specific heat capacity so it needs lots of energy to increase the temperature - the energy is needed to break the hydrogen bonds
water resists temperature changes, providing a more stable environment within cells and aquatic organisms

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27
Q

what does the latent heat of vaporisation and latent heat of fusion property in water mean

A

needs lots of heat to turn water into a gas and needs a large lack of heat for water to freeze
evaporation of water from the surface of organisms eg. sweating/transpiration - can provide a significant cooling effect
water within cells and aquatic habitats is slow to freeze providing a more stable environment

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28
Q

what does the density property in water mean

A

water is less dense as a solid than a liquid
when a water freezes each molecule forms hydrogen bonds with four others. this creates a lattice that holds molecules further apart than a liquid.
Ice therefore floats on water, enabling aquatic organisms to survive in water underneath the ice of frozen lakes and ponds

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29
Q

what does the capillarity property in water mean

A

water can move up a narrow tube against gravity by capillarity/capillary action
helps plants move water from their roots to their shoots

adhesion/surface tension/cohesion

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30
Q

what does the surface tension property in water mean

A

at a water-air interface, water molecules form hydrogen bonds with other water molecules but not with air. This uneven distribution results in surface tension.
causes surface of water to form a ‘skin’ which can support aquatic plants and insects

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31
Q

define cohesion and adhesion

A

cohesion - water molecules stick together because they form hydrogen bonds with each other
adhesion - water can stick to other polar substances and this is the reason why water is wet

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32
Q

what is hydrogen bonding in water

A

the negative charge of an oxygen atom of one molecule attracts the positive charge of the hydrogen on other molecules

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33
Q

what makes up carbohydrates

A

carbon
oxygen
hydrogen

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34
Q

what is a monosaccharide and give some examples

A

a single sugar unit

eg. glucose, fructose and ribose

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35
Q

what is a disaccharide and give examples

A

when two monosaccharides join together

eg, lactose and sucrose

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36
Q

what is a polysaccharide and give examples

A

when more than two monosaccharides join together

eg. glycogen, cellulose and starch

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37
Q

what is the formula is glucose and what type of monosaccharide is it?

A

C6H12O6

hexose monosaccharide

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38
Q

how do you label carbons on a molecular structure diagram

A

start from the carbon on the right and go clockwise

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39
Q

what is different in the structure between alpha and beta glucose

A 
the OH (hydroxyl) group in carbon 1 is in opposite directions
in alpha glucose the OH is on the bottom whereas beta glucose has the OH on top on carbon 1
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40
Q

why are glucose molecules polar and soluble in water

A

this is due to the hydrogen bonds that form between hydroxyl groups and water molecules

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41
Q

what is a condensation reaction between glucose

A

when 2 alpha glucose molecules are next to each other, 2 hydroxyl groups interact.
two hydrogen atoms and an oxygen atom are removed from glucose monomers and join to form a water molecule. A bond forms between carbon 1 and carbon 4 (a 1-4 glycosidic bond)

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42
Q

glucose + glucose = (a)

(bi) + (bii) = lactose

glucose + (c) = sucrose

A

a) maltose
b) glucose + galactose
c) fructose

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43
Q

what is amylose

A

formed by alpha glucose 1-4 glycosidic bonds
helix
much less soluble than glucose
found in starch

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44
Q

what is amylopectin

A

the other starch polysaccharide
formed by alpha glucose 1-4 glycosidic bonds and alpha glucose 1-6 glycosidic bonds
branched

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45
Q

what is glycogen

A

storage molecule to starch
forms more branches than amylopectin which means it is more compact - good for storage
alpha glucose 1-4 and 1-6 glycosidic bonds

46
Q

how is glucose released for respiration

A

by a hydrolysis reaction
(opposite of condensation)
addition of water
catalysed by enzymes

47
Q

how is cellulose formed

A

beta glucose 1-4 glycosidic bonds
every other beta glucose molecules flips upside down so the hydoxyl groups can bond
this means it is unable to coil or make branches so cellulose is a straight chain

48
Q

in cellulose, what are microfibrils?
what are macrofibrils?
what are fibres?

A

cellulose molecules make hydrogen bonds with each other forming microfibrils
these microfibrils join together forming macrofibrils
macrofibrils join to form fibres
the fibres are strong and insoluble and are used to make cell walls

49
Q

how do you test for reducing sugars?

A

Benedict’s Test:
Place sample to be tested in a boiling tube
Add an equal volume of Benedict’s reagent
Heat mixture gently in a boiling water bath for 5 minutes

50
Q

what do the results show for reducing sugars

A 
high concentration - red
medium - orange
low - yellow
very low - green
none - blue
51
Q

why do reducing sugars make benedict’s reagent turn red

A

They react with the copper ions in the reagent and the blue copper ions ( Cu2+) gain an electron making Cu+ which is red when heated.
The more reducing sugars the more darker red will form because more copper ions can react with the reducing sugars.

52
Q

what do you do if you test for reducing sugars and the solution remains blue?

A

example: sucrose
once you get a negative result you get another sample of the solution and boil with dilute hydrochloric acid. If the sample is sucrose then the solution will split into glucose and fructose and when you do the Benedicts test again it will turn red because they are reducing sugars. if it still is blue then the sample isn’t sucrose (could be water)

53
Q

how do you test for starch

A

iodine test
add a few drops of iodine to the sample and it will turn purple/black if starch is present
it remains yellow/brown if the test is negative

54
Q

what are triglycerides

A

made of one glycerol molecule with 3 fatty acids

these bond through their hydroxyl groups therefore they produce water molecules

55
Q

what is the bonding of triglycerides called?

how would they unbond?

A

esterification
three water molecules need to be supplied to cause the reverse reaction (hydrolysis)
because there are 3 ester bonds between each of the 3 fatty acids and glycerol

56
Q

what does it mean if fatty acids are saturated?

A

they have no double bonds present between carbon atoms

57
Q

why are unsaturated fatty acids liquid at room temperature?

give examples

A

double bonds causes the molecule to bend and can’t pack together to form a solid
oils

58
Q

what are phospholipids

A

modified triglycerides
contains phosphorus along with carbon, hydrogen and oxygen
phosphate ions in the cytoplasm which are negatively charged so is soluble in water

59
Q

what is the structure of phospholipids

A

one of the fatty acid chains in triglycerides is replaced with a phosphate group
hydrophobic - hydrophilic structure
head is hydrophilic and tails are hydrophobic which makes a surfactant (surface active agent)

60
Q

what are sterols

A

complex alcohol molecules based on four carbon ring structure with a hydroxyl group at one end

hydrophobic - hydrophilic structure

61
Q

name an important example of a sterol and its role

A

cholesterol

forms part of cell membranes - stabilises them and regulates their fluidity by keeping them at low temps

helps waterproof the skin

62
Q

what are some roles of lipids within the body (e.g. what molecules are lipids used to synthesise)

A
  • membrane formation and creation of hydrophobic barriers
  • hormone production
  • myelin production
  • waterproofing eg. birds feathers and plant leaves
63
Q

what are some roles triglycerides?

where are they found?

A
  • thermal insulation to reduce heat loss
  • cushioning to protect vital organs like heart and kidneys
  • bouyancy for aquatic animals (they can float)
64
Q

what does a double bond in a fatty acid lead to?

A

a kink in the chain causing the lipid to be more liquid

65
Q

what type of triglycerides to plants contain and do animals contain?

A

plants - unsaturated triglycerides which normally occur as oils
animals - saturated triglycerides which are normally solid fats

66
Q

what is the structure of an amino acid

A

amine group - nitrogen and 2 hydrogen
carboxyl group - O = C - OH
C - H in the middle
An R group which results in different amino acids

67
Q

how many amino acids do we have

A

20
9 are essential
6 are conditionally essential (growing children)
5 are non-essential

68
Q

what is a peptide bond

A

formed between 2 amino acids and water is formed

resulting compound is a dipeptide

69
Q

how do amino acids bond

A

the amine group of one amino acid bonds with the carboxyl group of another amino acid
the hydroxyl of the carboxyliuc group bonds with the hydrogen of the amine group
water is formed

70
Q

what is a polypeptide

A

when many amino acids join together

it is catalysed by peptidyl transferase

71
Q

what do different R groups mean

A

they interact with each other and form complex structures called proteins
different shapes mean different functions

72
Q

what is thin layer chromatography

A

It separates individual components in a mixture.
Stationary phase - thin layer of silica gel is applied to a rigid surface. Amino acids are added to one end of the gel. It’s then submerged in organic solvent
Mobile phase - the organic solvent moves through silica gel
Different amino acids move a different paces so you know which ones a present in the mixture

73
Q

What is Rf and what is the calculation

A

retention value

distance travelled by component / distance travelled by solvent

74
Q

what is the primary structure of protein

A

sequence in which the amino acids are joined. directed by structure carried in DNA
only bonds involved are peptide bonds

75
Q

what is the secondary structure of protein

A

the oxygen, hydrogen and nitrogen atoms of the amino acid interact
Hydrogen bonds may form within the amino acid chain pulling it into a coil shape called an alpha helix
The chains can also lie parallel forming sheet-like structures. This is called beta pleated sheet

76
Q

what is the tertiary structure of protein

A

folding of a protein into its final shape
includes sections of secondary structure
brings R groups closer together so they interact:
-hydrophobic/hydrophilic reactions
-hydrogen bonds formed
-ionic bonds
-disulphide bond which are covalent

77
Q

what is the quaternary structure of protein

A

association of two or more individual proteins called subunits.
protein subunits can be identical or different
eg. insulin has different subunits
haemoglobin has 4 subunits (2 sets of 2)

78
Q

how do you break down peptides

A

protease catalyses the reverse reaction - turning peptides back to amino acids
a water molecule is used so its a hydrolysis reaction

79
Q

what is the biuret test

A

Test for the presence of peptide bonds, so can be used to test for proteins

If protein present:
Blue —-> Violet

Intensity of violet colour is proportional to number of peptide bonds

80
Q

what are globular proteins

A

Compact, water soluble and roughly spherical.
Form when proteins fold into their tertiary structure
The hydrophilic R groups are on the outside of the protein, hence are soluble in water.

81
Q

Describe the structure of Insulin

A

A globular Protein

A peptide Hormone

Made of two polypeptide chains (one alpha and one beta) held together by disulphide bridges

Hydrophilic interactions on outside making it water soluble, this is important so that it can be transported in the bloodstream.

82
Q

what are conjugated proteins

A

globular proteins that contain a non-protein component called a prosthetic group

metal ions and molecules derived from vitamins also form prosthetic groups

Haem groups are examples of prosthetic groups

83
Q

what is catalase

A

an enzyme
increase reaction rates
a quaternary protein containing 4 haem prosthetic groups
Fe2+ allows catalase to interact with hydrogen peroxide and speed up its breakdown

84
Q

what are fibrous proteins

A

long, insoluble molecules
limited range of amino acids usually with small R groups
amino acids sequence is in primary structure and is repetitive

85
Q

what is keratin

A

group of fibrous proteins present in hair, skin and nails
large proportion of amino acid cysteine
many strong disulphide bonds
strong, inflexible and insoluble

86
Q

what is elastin

A

Quaternary protein formed from tropoelastin

has elasticity and is found in blood vessels allowing them to expand and return to their normal size

87
Q

what is collagen

A

fibrous protein
connective tissue found in skin, tendons, ligaments and the nervous system
made up of three polypeptides wound together in long rope-like structures
has flexibility

88
Q

what do nucleotides contain

A

phosphate group
nitrogenous base
pentose sugar

89
Q

what are some difference between DNA and RNA

A
  • RNA is single stranded but DNA is double stranded
  • The sugar in RNA is ribose but in DNA it is deoxyribose
  • The base uracil and thymine differ so the bases in RNA are A,U,C,G but in DNA it is A,T,C,G
  • DNA is longer - has millions of nucleotides but RNA only has thousands
  • Only one type of DNA but 3 types of RNA
90
Q

What are pyrimidines?

What are purines?

A

Pyrimidines are the smaller bases which contain single carbon ring structures - T and C

Purines are the larger bases which contain double carbon ring structures - A and G

91
Q

In DNA what bases pair with each other and how many bonds are there?
How does RNA differ?

A

T and A bond with 2 hydrogen bonds

C and G bond with 3 hydrogen bonds

Same with RNA but the T is replaced with U

92
Q

what are the bonds between nucleotides called?

A

phosphodiester bonds

93
Q

how do the bonds form between the nucleotides

A

condensation reaction

carbon 5 on the phosphate end from the five prime end bonds with carbon 3 on the hydroxyl group at the three prime end

94
Q

what is the double helix in the DNA

A

bases form hydrogen bonds with each other and are parallel to each other
the two parallel strands are arranged so that they run in opposite directions so are antiparallel

95
Q

what does it mean if there are more C-G bonds?

A

there is a higher melting and boiling point

96
Q

If there was 16% of A

How much T, C and G will there be?

A

A = T so T = 16%
100-(16+16) = 68
C=G so half 68
68/2 = 34

T = 16%
C = 34%
G = 34%
97
Q

what are the three types on RNA

A

mRNA - messenger
tRNA - transfer
rRNA - ribosomal (component of ribosomes)

98
Q

what are DNA and RNA

A

nucleic acids

99
Q

what are the steps in dna replication

A

1) DNA unwinds and unzips. This is catalysed by the enzyme DNA helicase.
2) Produces 2 strands: antisense and sense
3) Free DNA nucleotides in the nucleus bind to both the sense and antisense strand by complementary base pairing, forming hydrogen bonds
4) DNA polymerase catalyses the reaction to form the sugar-phosphate backbone

100
Q

what is the basic process of protein synthesis

A

1) transcription of the gene in the nucleus - mRNA strand formed
2) Processing of mRNA (spliced)
3) Translation of mRNA in a ribosome - polypeptide chain formed
4) modification of the protein

101
Q

what is the detailed process of transcription

A

In the nucleus

1) The gene unwinds and unzips which is catalysed by the enzyme DNA helicase.
2) Only the antisense strand is used for complementary base pairing with RNA nucleotides (A,U,C,G). Catalysed by the enzyme RNA polymerase.
3) A new molecule of mRNA is formed.
4) This detaches and leaves the nuclear pore.

102
Q

what is the detailed process of translation

A

1) mRNA leaves the nucleus and attaches to a ribosome.
2) The first codon of the mRNA is read
3) A tRNA molecule has an anticodon attached which matches the codon.
4) Attached also to the tRNA is the specific amino acid
5) The ribosome then moves along and reads the next codon.
6) The two adjacent amino acids join together by a peptide bond.
7) This is repeated all the way along the mRNA until the stop codon is reached
8) A polypeptide is formed which is the primary structure of a protein

103
Q

what are the roles of mRNA, tRNA and rRNA in protein synthesis?

A

mRNA - copies gene from DNA and takes copy to the ribosome

tRNA - brings amino acid to ribosome

rRNA - forms the ribosome

104
Q

what is the DNA code wheel?

A

shows how the genetic code is degenerate
different combinations of bases can code for the same amino acid

you start from the centre and work outwards to find the amino acids

there are 20 amino acids

105
Q

what are the 3 main groups in which we need energy for

A

synthesis
transport
movement

106
Q

what is ATP made of?

A

adenine base
3 phosphate groups
ribose

107
Q

what is formed when you hydrolyse ATP

A

ATP + water ->

ADP
+inorganic phosphate
+30.5 kJ of energy

108
Q

what are the properties of ATP

A

stores and releases only a small manageable amount of energy
soluble
easily broken down
can transfer its phosphate group into other molecules
no energy wasted
easily transported around cell
easy release of energy
immediate supply of energy always at hand

109
Q

why is DNA replication described as semi-conservative?

A

(new molecule consists of) one old strand and one new strand

110
Q

what are the similarities between DNA replication and transcription

A
  • both use DNA helicase to unwind and unzip the DNA
  • both involve complementary base pairing
  • both involve breaking of hydrogen bonds between the DNA strands
111
Q

what are the differences between DNA replication and transcription

A
  • DNA replication involves DNA polymerase, whereas transcription is RNA polymerase
  • The whole DNA molecule unzips in DNA replication but in transcription, only the gene unzips
  • In DNA replication both strands (sense and antisense) are copied whereas in transcription, it’s only the antisense that acts as a template and the nucleotides bind to
  • The products of DNA replication are 2 DNA molecules but transcription makes 1 single stranded mRNA molecule

ABHAYS A-LEVEL BIO FLASHCARDS (24 decks)

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