Module 2.1.2 - biological molecules Flashcards
What is an ion?
An atom or molecule in which the total number of electrons is not equal to the number of protons
What is a molecule?
When 2 or more atoms bond
All living things are made up from what 4 elements?
carbon, hydrogen, nitrogen, oxygen
What is the bond rule?
Carbon - 4
Nitrogen - 3
Oxygen - 2
Hydrogen - 1
What is a covalent bond?
When 2 atoms share a pair of electrons
What is Ca 2+ needed for?
Nerve impulse transmission and muscle contraction
What is Na+ needed for?
Nerve impulse transmission and kidney function
What is K+ needed for?
Nerve impulse transmission and stomach opening
What is H+ needed for?
Catalysis transmission and pH Determination
What is NH4+ needed for?
Production of nitrate ion by bacteria
What are biological molecules made up of?
Polymers which are long chain molecules with multiple linked monomers
What is OH- needed for?
Catalysis of reactions and pH determination
What is PO4 3- needed for?
Cell membrane formation, nuclei acid, ATD formation and bone formation
What is Cl- needed for?
Balance of positive charge of sodium and potassium ions
What is HCO3- needed for?
Maintenance of blood pH
What is NO3- needed for?
Nitrogen supply to plants for amino acids and protein formation
What does polar mean?
has areas of positivity and negativity
What always has a greater share of electrons compared to hydrogen?
Oxygen
An atom with a greater share of electrons will be?
Slightly more negative
An atom with a smaller share of electrons will be?
Slightly more positive
Why does water have a high boiling point?
The hydrogen bonds between the molecules take a lot of energy to break
What does water become when it turns into ice?
Less dense
Why is ice less dense?
Hydrogen bonds fix their positions of the polar molecule slightly further apart
What does cohesive mean?
Moves as one mass because molecules are attracted to each other
What does adhesive mean?
Water molecules are attracted to other molecules
What does water act as?
- a solvent
- a medium for chemical reactions
- transports dissolved compounds in and out of cells
- a coolant
What is the surface tension of water strong enough to hold?
Small insects
Why does water provide a constant temperature environment?
It doesn’t change temperature or become a gas easily
What is the formulae for glucose?
C6H12O6
What type of monosaccharide is glucose?
Hexose monosaccharide as has 6 carbons
What type of molecule is glucose?
Polar molecule
Why is glucose soluble in water?
Hydrogen bonds that form between the hydroxyl groups and water molecules
What is the formulae of ribose?
C5H10O5
What type of monosaccharide is ribose?
Pentose monosaccharide as has 5 carbons
What is the most important pentose present in living organisms?
Ribose
What is ribose’s functional group?
Aldehydic as it’s an aldose sugar
What is the formulae for starch?
(C6H10O5)n
What is starch?
A polysaccharide made up of 1,4 linkages between glucose molecules
What is starch made up of?
Long chains of sugar molecules that are connected together
What is the most basic form of starch?
The linear polymer amylose (amylopectin is the branched form)
What is the formulae for glycogen?
C24 H4 O21
What is the main energy store in animals?
Glycogen
What is glycogen formed from?
Many molecules of alpha glucose joined together by 1,4 and 1,6 glycosidic bonds
What do the side branches of glycogen do?
Means energy can be release quickly as enzymes can act simultaneously on these branches
On a molecular diagram, which way do you number the carbons?
Clockwise, starting to the right of oxygen
What does Benedicts solution test for?
reducing sugars or non-reducing sugars
What are the results of the Benedicts test?
+ brick red colour
- blue colour
What happens to non-reducing sugars when combining with Benedicts solution?
They don’t react so the solution stays blue
What is the most common non-reducing sugar?
Sucrose
What does adding HCL to a non-reducing sugar do?
Is hydrolysed by the acid to glucose and fructose, both are reducing sugars
What is used to test for starch?
Iodine
What are the results of using iodine to test for starch?
+ yellow/brown turns to purple/black
- stays yellow/brown
What are reagent strips used for?
Test for the presence of reducing sugars (glucose)
How can the concentration of the sugar be determined when using a reagent strip?
Colour-coded chart
What are carbohydrates made of?
Carbon, hydrogen and oxygen
What are monosaccharides?
Monomers that make up carbohydrates
What are the monomers that make up carbohydrates called?
Monosaccharides
What are monosaccharides joined together by?
Glycosidic bonds
What is a disaccharide?
When 2 monosaccharides join together
What is a polysaccharide?
When more than 2 monosaccharides join together
What is the main energy store in plants?
Starch
How do plant cells get energy?
From glucose and excess glucose is stored as starch
Why is starch good for storage?
It is insoluble so doesn’t cause water to enter via osmosis
What is starch a mixture of?
A mixture of 2 polysaccharides of alpha glucose : amylose and amylopectin
What is amylose?
A long unbranched chain of alpha glucose
Why is amylose good for storage?
Angles of the glycosidic bonds give it a coiled structure which makes it
good for storage
What is amylopectin?
A long branched chain of alpha glucose
Why can glucose be released quickly from the branched on amylopectin?
The side branches allow the enzymes that break down the molecule to get at the glycosidic bonds easily - glucose is released quickly
What is the main energy store in animals?
Glycogen
Where do animals get energy from?
Glucose but excess glucose is stored as glycogen
What is good about the many branches on glycogen?
Glucose can be released quickly which is important in animals
How is glycogen good for storage?
It is compact
What is the main component of cell walls in plants?
Cellulose
What type of branches does cellulose have?
Long unbranched chains of beta-glucose
What does cellulose form?
Long straight chains that are linked together by hydrogen bonds to form strong fibres called microfibrils
What does cellulose provide for plant cells?
Structural support
What are lipids commonly known as?
Fats or oils
What are the 3 types of lipids?
- triglycerides
- cholesterol
- phospholipids
What is the structure of cholesterol?
- has a hydrocarbon ring structure attached to a hydrocarbon tail
- the ring structure has a polar hydroxyl group attached to iy
What is the structure of triglycerides?
- made up of 1 molecule of glycerol with 3 fatty acids attached to it
- are synthesised by the formation of an ester bond between each fatty acid and glycerol molecule
- each ester bond is formed by a condensation reaction
- they break down when the ester bond is broken (in a hydrolysis reaction)
- the hydrophobic tails make the lipid insoluble in water
- saturated fats have a single bond between carbon atoms
- unsaturated fats have at least 1 double bond between carbon atoms
What are saturated fats?
Have a single bond between carbon atoms so are saturated with hydrogen
What is the structure of phospholipids?
- are similar to triglycerides but 1 of the fatty acid molecules is replaced by a phosphate group
- the phosphate group is hydrophilic and the fatty acid tails are hydrophobic
What are unsaturated fats?
Have at least 1 double bond between carbon atoms which causes the chain to have a kink
What are the functions of triglycerides?
- insoluble so don’t cause water to enter the cells by osmosis
- bundle together as insoluble droplets in cells because the fatty acid tails are hydrophobic
- used as an energy storage molecules in animals and plants
- some bacteria use them to store energy and carbon
- good for storage as the long hydrocarbon tails of the fatty acids contain lots of chemical energy
What are the functions of cholesterol?
- help regulate the fluidity of the cell membrane by interacting with the phospholipid bilayer in eukaryotic cells
- small and flattened shape so can fit between phospholipid molecules in the membrane
- at higher temps, the bind to the hydrophobic tails of the phospholipids, causing them to pack more closely together
- makes the membrane less fluid and more rigid
- at lower temps, prevents phospholipids packing too close together so increases membrane fluidity
What are the functions of phospholipids?
- found in cell membranes of all eukaryotes and prokaryotes
- make up the phospholipid bilayer
- center of the bilayer is hydrophobic so water soluble substances can’t pass through it easily
What is chromatography used for?
To separate mixtures
e.g. biological molecules
What are the 2 types of chromatography?
- paper chromatography
- thin layer chromatography (TLC)
What is the mobile phase in chromatography?
Where the molecules can move (the liquid)
What is the stationary phase in chromatography?
Where molecules cannot move
- the paper in paper chromatography
- a thin layer of solid in TLC
What is the equation to find the retention factor?
Distance moved by the solute/distance moved by the solvent
What would be used for the mobile phase in paper chromatography?
Ethanol or water
What does the time spent in the different phases of chromatography do?
Separates the components of the mixture
What is DNA and RNA?
Molecules that are essential to the function of living organisms and both made up of nucleotides
What is contained in a nucleotide?
Carbon, hydrogen, oxygen, nitrogen and phosphate
What are nucleotides made up from?
A pentose sugar, nitrogen containing base and a phosphate group
What is DNA used for?
Storing genetic information
What is RNA used for?
To make proteins from the instructions in DNA
What bases pair together?
A with T that has 2 hydrogen bonds
C and G with 3 hydrogen bonds
What do the bases stand for?
Adenine
Thymine
Cytosine
Guanine
Uracil
What is RNA?
Single polynucleotide chain, ribose sugar, U replaces T
What are adenine and guanine?
Both purines
What are cytosine, thymine and uracil?
Both pyrimidines
How many carbon-nitrogen rings does purine contain?
2 carbon-nitrogen rings joined
How many carbon-nitrogen rings does pyrimidine contain?
Only 1 carbon-nitrogen ring
What does phosphorylated mean?
Added phosphate
What does ADP contain?
Base adenine, sugar ribose and 2 phosphate groups
What does ATP contain?
Base adenine, sugar ribose and 3 phosphate groups
What is energy from glucose used to make?
ATP and then molecules of ATP provide energy for chemical reaction
What doe plant and animal cells release?
Energy from glucose
How is a phosphate bond formed?
ATP is synthesised from ADP and inorganic phosphate. The ADP is phosphorylated to form ATP and phosphate bond is formed
What is stored in phosphate bonds?
Energy
What is release from the phosphate bond and used by the cell?
Energy
What happens when energy is needed by a cell?
ATP is broken down back into ADP and inorganic phosphate
What is DNA made up of?
2 nucleotide chains joined together
What do nucleotides joined together to form?
Polynucleotides
What do nucleotides join up between?
The phosphate group of one nucleotide and the sugar of another (by a condensation reaction)
This forms a phospholipid-ester bond
What is a phospholipid-ester bond?
Phosphate group and 2 ester bonds
What is the sugar phosphate backbone?
Chain of sugars and phosphates
What is a chain of sugars and phosphates known as?
Sugar phosphate backbone
How can polynucleotides be broken back down?
Hydrolysis
What is DNA composed of?
2 polynucleotides strands joined together to form a double helix shape
How do polynucleotides join together in DNA?
Hydrogen bonding between the bases
How many bonds does adenine and thymine have?
2 hydrogen bonds
How many bonds does cytosine and guanine have?
3 hydrogen bonds
What does DNA replicate for?
To copy itself before cell division so that each new cell has the full amount of DNA
Why is DNA replication important?
For making new cells and for passing genetic info from generation to generation
What is the process of DNA replication?
- DNA helicase (breakdown)
- template/copy
- DNA polymerase (joined together)
What is DNA helicase?
Breaks down hydrogen bonds between 2 polynucleotide DNA strands. Helix unzips to form 2 single strands
What is the template stage in DNA replication?
Each original strand acts as a template for a new strand. Free floating nucleotides join to exposed bases on each original template strand by complimentary base pairing
What is the DNA polymerase stage in DNA replication?
Nucleotides on new strand are joined together by the enzyme DNA polymerase. This forms the sugar-phosphate backbone. Hydrogen bonds form between the bases on original and new strand. The strands twist to form a double helix. Each new DNA molecule contains 1strand from new and 1 original strand DNA molecules
What is semi-conservative replicating?
1 original and 1 new strand that form to make a double helix DNA molecule
How accurate is DNA replication?
99.99%/ very accurate
Why does DNA replication have to be very accurate?
Makes sure genetic info is conserved each time cell is replicated but random spontaneous mutations can still occur
What is a mutation?
Change in sequence of DNA bases
What is a gene?
Sequence of DNA nucleotides that code for a polypeptide
What determines the order of the amino acids?
Different proteins have a different number and order of amino acids. The order of the nucleotide bases in a gene determines this.
What is each amino acid coded by?
3 bases (triplet) in a gene, different sequences of bases code for different amino acids
What do the sequence of bases in a section of DNA used as?
A template used to make proteins during protein synthesis
Where is DNA found?
In the nucleus
Why cant DNA move out of the nucleus?
It is too large so a section is copied into mRNA
This is called transcription
What doe mRNA do as it leaves the nucleus?
Joins with a ribosome in the cytoplasm where it can be used to synthesis a protein
This is called translation
What is RNA?
Single polynucleotide strand
What does RNA contain?
Uracil instead of Thymine
What are the 3 types of RNA?
- mRNA
- tRNA
- rRNA
What is mRNA?
Messenger RNA
single polynucleotide strand, made in nucleus during transcription
What does mRNA do?
Carries genetic code from DNA in nucleus to cytoplasm where its used to make proteins during translation
What is tRNA?
Transfer RNA
single polynucleotide strand that folded into a clover shape, hydrogen bonds hold molecules together in this shape, every molecule has a sequence of 3 bases called an anticodon at 1 end, found in cytoplasm
What does tRNA do?
Carries the amino acids that are used to make proteins to the ribosomes, as have an amino acid binding site at 1 end
What is rRNA?
Ribosomal RNA
forms 2 subunits in a ribosome along with the proteins, ribosome moves along mRNA strand during protein synthesis
What does rRNA do?
rRNA in ribosomes helps catalyze the formation of peptide bonds between the amino acids
What is the genetic code?
Sequence of base triplets in DNA or mRNA which codes for a specific amino acid, each triplet is read in sequence, more codons than amino acids, some triplets tell cell to stop production of a protein by a stop signal
What is the first stage of protein synthesis?
Transcription
What are the 4 stages of transcription?
- RNA polymerase attaches to the DNA
- Complementary mRNA is formed
- RNA polymerase moves down the DNA strand
- mRNA leaves the nucleus
What happens in the first stage of transcription?
RNA polymerase attaches to double helix at beginning of a gene. Hydrogen bonds between 2 DNA strands in the gene break, separating the strands and the DNA molecule uncoils. 1 strand is then used as a template to make an mRNA copy
What happens in the second stage of transcription?
RNA polymerase lines up free RNA nucleotides along the template strand. Complementary base pairing means that the mRNA strand ends up being a complementary copy of the DNA template strand. Once RNA nucleotides have paired up, they’re joined together by RNA polymerase forming mRNA strand
What happens in the third stage of transcription?
RNA polymerase moves along the DNA and assembles the mRNA. Hydrogen bonds between the uncoiled strands of DNA re-form once the RNA polymerase has passed by and the strands go back into a double helix
What happens in the fourth stage of transcription?
When RNA polymerase reaches a stop codon, it stops making the mRNA and detaches from the DNA. mRNA moves out of the nucleus through a nuclear pore and attaches to a ribosome
Where does transcription take place?
Nucleus
Where does translation take place?
Cytoplasm
What is the first stage of translation?
Amino acids joined together by a ribosome to make a polypeptide chain(protein). Follows a sequence of codons carried by mRNA. mRNA attaches itself to a ribosome and the tRNA molecules carry the amino acid to the ribosome
What is the second stage of translation?
tRNA molecule with an anticodon that is complementary to the start codon attaches to mRNA by complementary bas pairing. Second tRNA molecule attaches itself to the next codon on the mRNA in the same way
What is the third stage of translation?
Ribosomal RNA in the ribosome catalyzes the formation of a peptide bond between the 2 amino acids attached to tRNA molecules. This joins amino acids together. First tRNA molecule moves away leaving its amino acid behind
What is the fourth stage of translation?
Third tRNA molecule binds to the next codon on the mRNA. Amino acid binds to the first 2 and second tRNA moves away. This process continues until there’s a stop codon on the mRNA molecule