Biochemistry 1 Flashcards
(76 cards)
Chemistry
the science that deals with the composition and properties of substances and various elementary forms of matter (gas, liquid, solid)
Biochemistry
the science concerned with the chemical and physicochemical processes & substances that occur within living organisms
Matter
everything around us that has mass and occupies space.
– Atoms are small particles that make up matter - the “Lego bricks” that make up everything in our universe.
– Atoms are made up of electrons, protons & neutrons
An element
substance made up of just one type of atom so it cannot be split up into simpler substances.
- The elements we know of are in the Periodic Table.
- In Chemistry each element is given a chemical symbol for its long name. For example:
- Hydrogen – H.
- Carbon – C.
- Calcium – Ca.
- Magnesium – Mg.
Elements in the Human Body
26 different elements are normally present in the human body.
• 4 major elements - carbon, hydrogen, oxygen and nitrogen, which account for 96% of the human body.
Subatomic Particles
Every element is made up of atoms. Each atom is made up of subatomic particles called protons, neutrons and electrons.
Protons and neutrons together form the nucleus of an atom.
- Protons have a positive charge and a mass of approximately 1 atomic unit.
- Neutrons have no charge and a mass of approximately 1 atomic unit.
- Electrons are negatively charged particles electron = electric that ‘buzz’ around the outside of the nucleus, neutron = neutral creating an electron cloud. They have virtually no mass at all.
Electrons
An element will have an equal number of electrons and protons giving an overall neutral charge to the atom. Recall that electrons carry a negative charge.
- Electrons move in groups around the nucleus, known as ‘electron shells’.
- Within their shells electrons ‘pair-up’.
- An atom becomes reactive if its outer shell isn’t full or if it loses an electron.
- This happens in ‘free radicals’, where an electron become unpaired.
Atoms are like families
Each proton is an adult with one child (an electron).
- Each neutron is an adult with no children.
- The adults hang out together in the centre (nucleus) - each weigh 1.
- The children (electrons) buzz around the adults like an excited cloud and weigh (virtually) nothing.
- Each parent (proton) has a positive charge and each child (electron) has a negative charge.
- The opposite charges attract each other, keeping the family together!
- All the chemical properties of an atom are down to its number of protons and electrons. The neutrons just add weight to the atom; they don’t significantly change how it chemically reacts.
The Periodic Table
The Periodic Table is a list of all of the currently known elements, arranged in columns and rows that show us which elements share similar reactivity and physical properties.
- The number that is assigned to each element tells us how many protons and, therefore, how many electrons each atom has.
- The larger number is always the mass number (the weight in atomic units). It tells us how much the atom weighs so it can be used to work out the number of neutrons (remembering that electrons weigh nothing).
The Periodic Table: Halogens
A specific column of elements in the Periodic Table are collectively known as the ‘Halogens’.
- Like with any column in the Periodic Table, the Halogens share very similar chemical and physical properties.
- In nutrition, this is highly relevant when considering the role of iodine in thyroid health. Recall that iodine is required for the synthesis of thyroid hormones (T3 & T4).
- If present in the body, the other halogens (e.g. fluoride & chloride) can enter the thyroid, preventing the formation of T3 & T4 (inducing hypothyroidism).
- Fluoride is in toothpaste, tap water and mouthwashes, whilst chlorine is in swimming pools and chlorinated washed vegetables.
Counting Subatomic Particles
Atomic number = number of protons.
Mass number = number of protons + number of neutrons.
Number of neutrons = Mass number (always bigger) – atomic number.
Isotopes
Isotopes = atoms of the same element which have a different numbers of neutrons in the nucleus.
- In nature there are often different versions of the same atom called isotopes.
- This does not affect the chemical activity of the atom as neutrons have no charge, but it does change the mass.
Radiation
Some (but not all) isotopes have such an imbalance of protons (parents) and neutrons in their nucleus that it causes the atom (family) to become unstable.
• This is the cause of radioactivity. The unstable atom needs to get rid of energy to become stable.
Electron Shells
Electrons like to “hang out” in certain numbers (2, 8, 8, 8) so the optimum number of electrons in a shell is a known number.
- This means that the first electron shell has 2 electrons, whilst the second has 8 and so on.
- Electrons always want to be in pairs.
- All of the reactions that happen in Chemistry are driven by atoms trying to end up with a stable and full outer shell either by stealing, giving away (donating) or sharing electrons.
Hydrogen
Hydrogen contains: One proton, One electron. No neutrons.
- We often refer to Hydrogen, when it is in its H + form (hydrogen minus the electron’), as being a ‘proton’. This is why we talk about acidity in terms of protons.
- Because hydrogen has only one electron in its outer shell, it will often go looking for another atom that needs one electron to fill its shell. This means that hydrogen easily reacts with other atoms.
- Some elements do not easily react as they have their outer shell filled with the perfect number, so they are rarely involved in chemical reactions. We call these elements ‘inert’.
Bonding
Atoms that are trying to become stable by bonding with other atoms so that they can get just the right number of electrons in their outer shell.
types of bonding
- Ionic bonding – atoms transfer electrons (1 donates, 1 receives).
- Covalent bonding – occurs when atoms share electrons.
Ionic Bonding
Ionic bonds occur when one atom donates some of its electrons to another.
- This usually only occurs when there are 1, 2 or occasionally three electrons to donate.
- Moving any more electrons than this isn’t energetically favourable.
Ions
If an atom gives up or gains electrons to fill its outer shell, it becomes an ion.
- Ionisation is the process of giving or gaining electrons.
- Ions are written with their corresponding – or + charge. For example:
- Ca² + has donated two electrons to another element and now has a positive charge.
- Cl¯ has gained an electron so has taken on a negative charge.
- In both cases the Calcium and Chlorine have ended up with a full outer shell.
Sodium Ion
Sodium has one electron in its outer shell.
- Energetically its far easier to give that one electron away than to gain or share 7.
- So sodium always gives its one electron away to become Na+ .
Covalent Bonds
Covalent bonds occur when two elements share electrons so that they both have the “magic number” they are looking for.
This kind of bonding tends to happen when the two atoms are similar or when there are a lot of spaces to be filled to reach a full outer shell.
Polar
Polar covalent bonds form where electrons are shared unequally.
This happens because some atoms have a lot of ‘electron pulling power’.
- Some elements have lots of protons compared to the number of electron shells i.e. a strong positive centre. These elements are referred to as ‘electronegative’ because they tend to pull the shared electrons towards themselves.
- These very electronegative atoms are able to pull the electrons in a bond towards them, leading to an uneven distribution of charge.
Hydrogen Bonding
One of the most important examples of a polar bond are the bonds between Oxygen and Hydrogen in water.
The oxygen pulls the electrons towards itself, resulting in a negatively charged area over the oxygen and a positively charged area over each hydrogen.
- The positive hydrogens on one water molecule are attracted to the negatively charged oxygens on the next molecule.
- These loving interactions are called hydrogen bonds and are what give water many of its special properties such as surface tension and the ability to dissolve so many different things.
Water
Water serves as the medium for most chemical reactions in the body.
- As water contains polar bonds, it is an ideal solvent for dissolving chemicals into their separate ions. In addition, the different electrical charges in water can allow water molecules to become attracted to other molecules (hence water dissolves salt).
- Hydrophilic molecules are molecules which have polar bonds. They dissolve easily in water (e.g. alcohol).
- Hydrophobic molecules contain non-polar covalent bonds, so they do not dissociate easily in water (e.g. fats).