Week 2 - Chemical Level of Organization Flashcards

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1
Q

Chemical Elements

A

Matter exists in three states: solid, liquid, and gas. Solids, such as teeth and bones, are compact and have a definite shape and volume. Liquids, such as blood plasma, take up the volume of their container. Gases, such as oxygen, have no shape or volume.

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2
Q

Chemical Elements in the Body

A

There are 26 types of elements. The major elements, which constitute 96.5% of the body’s mass, include oxygen, carbon, hydrogen, and nitrogen. The lesser eight elements (3.6%) are calcium, potassium, sulfur, chlorine, magnesium, and iron. There are an additional 14 trace elements, which are present in small amounts and make up the remaining 0.45%.

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3
Q

Structure of Atoms

A

Each element is made up of an atom, which is composed of subatomic particles: protons, neutrons, and electrons around a nucleus.

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4
Q

Electron Shells

A
  • Shell 1 can hold a maximum of 2 electrons
  • Shell 2 can hold a maximum of 8 electrons
  • Shell 3 can hold a maximum of 18 electrons
  • Shell 4 can hold a maximum of 32 electrons
  • Shell 5 can hold a maximum of 50 electrons
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5
Q

Valence Shell

A

The outermost electron shell of an atom is called the valence shell. The electrons in the valence shell are involved in chemical bonding and interactions with other atoms.

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6
Q

Atomic Number/Mass Number/Atomic Mass

A

The atomic number is the number of protons in an atom. The mass number is the number of protons and neutrons in an atom. The atomic mass is the average mass of stable atoms of a given element.

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7
Q

Isotopes

A

Atoms of an element that have different numbers of neutrons, and therefore different mass numbers.

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8
Q

Radioactive isotopes

A

An unstable isotope that undergoes radioactive decay, emitting radiation in the process.

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9
Q

Ions

A

Electrically charged particles that are formed when atoms gain or lose electrons. For example, a sodium ion is formed when a sodium atom loses one electron, resulting in a positive charge.

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10
Q

Molecules

A

Groups of atoms held together by chemical bonds. For example, the H2O molecule is made up of two hydrogen atoms bonded to one oxygen atom.

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11
Q

Compounds

A

Substances composed of two or more different elements chemically combined. For example, CO2 is a compound made up of one carbon and two oxygen atoms.

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12
Q

Free Radical

A

A free radical is a highly reactive molecule or atom with an unpaired electron. It can damage cells and cause health issues by stealing electrons from other molecules. Antioxidants help neutralize free radicals to protect against damage.

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13
Q

Chemical Bonds

A

The forces that hold together the atoms of a molecule or a compound are chemical bonds. The likelihood that an atom will form a chemical bond with another atom depends on the number of electrons in its outermost shell, also called the valence shell.

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14
Q

Octet Rule

A

Atoms of most biologically important elements do not have eight electrons in their valence shells. Under the right conditions, two or more atoms can interact in ways that produce a chemically stable arrangement of eight valence electrons for each atom. This rule helps explain why atoms interact in predictable ways.

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15
Q

Ionic Bonds

A

When atoms lose or gain one or more valence electrons, it is called an ion. Positive and negatively charged ions are attracted to one another - opposites attract. This attraction creates a force that holds ions together.

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16
Q

Covalent Bonds

A

When a covalent bond forms, two or more atoms share electrons rather than gaining or losing them. Atoms form a covalently bonded molecule by sharing one, two, or three pairs of valence electrons. The larger the number of electron pairs shared between two atoms, the stronger the covalent bond. Covalent bonds may form between atoms of the same element or between two different atoms. They are the most common chemical bonds in the body, and the compounds that result from them form most of the body’s structure.

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17
Q

Single and Double Covalent Bonds

A

A single covalent bond results when two atoms share one electron pair. A molecule of hydrogen forms when two hydrogen atoms share their single valence electrons, allowing both atoms to have a full valence shell at least part of the time. A double covalent bond results when two atoms share two pairs of electrons, as in oxygen molecules. A triple covalent bond occurs when two atoms share three pairs of electrons, as in a molecule of nitrogen.

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18
Q

Polar Covalent Bonds

A

Polar covalent bonds are formed between two atoms that share electrons unequally. One atom has a higher electronegativity, resulting in a partial negative charge on that atom, and the other atom has lower electronegativity, resulting in a partial positive charge. This creates a separation of charges within the molecule.

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19
Q

Non-covalent Bonds

A

A type of chemical bond formed between two atoms that share electrons equally. The electronegativity of the atoms involved in the bond is similar, resulting in an even distribution of charge across the molecule. This creates a balanced electron sharing, making the molecule non-polar.

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20
Q

Hydrogen Bonds

A

Weak attractions between a hydrogen atom and an electronegative atom like oxygen or nitrogen. They contribute to the unique properties of water and play a crucial role in maintaining the structure of biological molecules such as proteins and nucleic acids.

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21
Q

Forms of Energy and Chemical Reactions

A
  • Thermal energy: The random motion of particles supplied or released during chemical reactions as heat.
  • Potential energy: Stored energy to be converted as bonds are broken and formed.
  • Electrical energy: The transfer of electrons can result in the generation of electrical energy.
  • Light energy: Electromagnetic radiation can be released during certain chemical reactions.
  • Kinetic energy: Associated motion of particles. During a chemical reaction, the rearrangement of atoms and molecules can result in an increase or decrease in kinetic energy.
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22
Q

Energy Transfer in Chemical Reactions

A

Chemical bonds represent stored chemical energy, and chemical reactions occur when new bonds are formed or old bonds are broken between atoms. The overall reaction may either release energy or absorb energy.

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23
Q

Activation Energy

A

Because particles of matter such as atoms, ions, and molecules have kinetic energy, they are continuously moving and colliding with one another. A sufficiently forceful collision can disrupt the movement of valence electrons, causing an existing chemical bond to break or a new one to form. The collision energy needed to break the chemical bonds of the reactions is called the activation energy of the reaction.

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24
Q

Concentration and Temperature’s Effect on Chemical Reactions

A

Concentration: More particles of matter present in a confined space increase the chances of a collision. The concentration of particles increases when more are added to a given space or when the pressure on the space increases, forcing the particles closer together and causing them to collide more often.

Temperature: As temperature rises, particles of matter move about more rapidly. Thus, the higher the temperature of matter, the more forcefully particles will collide and the greater the chance that a collision will produce a reaction.

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25
Q

Buffers

A

Buffers are substances that help maintain the pH of a solution by resisting changes in acidity or alkalinity. They can accept or donate protons (H+) to stabilize the pH and prevent drastic changes. Buffers are important in maintaining the pH balance in biological systems.

26
Q

Catalysts

A

Catalysts are substances that speed up the rate of a chemical reaction by providing an alternative pathway with lower activation energy. They do not get consumed in the reaction and can be used repeatedly. They work by lowering the energy barrier for the reaction, allowing reactant molecules to more easily reach the transition state and form products. They play a crucial role in various industrial processes and biological reactions enabling efficient and sustainable chemical reactions.

27
Q

Synthesis Reactions - Anabolism

A

When two or more atoms, ions, or molecules combine to form new and larger molecules, the processes are called synthesis reactions, meaning “putting together.”

28
Q

Decomposition Reactions - Catabolism

A

Decomposition reactions split up larger molecules into smaller atoms, ions, or molecules. They are usually exergonic because they release more energy than they absorb.

29
Q

Exchange Reactions

A

Exchange reactions consist of both synthesis and decomposition reactions. They involve an exchange of ions or functional groups between two reactants, resulting in new compounds.

30
Q

Reversible reactions

A

Reversible reactions can proceed both forward and back (e.g., water).

31
Q

Oxidation-reduction reactions

A

Oxidation-reduction reactions involve the transfer of electrons between reactants. Oxidation refers to the loss of electrons, while reduction refers to the gain of electrons.

32
Q

Solutions

A

Solutions are homogeneous mixtures in which one or more substances are uniformly dispersed and dissolved in another substance. Solute particles are typically at the molecular level.

33
Q

Colloids

A

Colloids are heterogeneous mixtures in which small particles of one substance are dispersed throughout another. These particles do not settle over time.

34
Q

Suspensions

A

Suspensions are heterogeneous mixtures in which solid particles or liquid droplets are dispersed in a liquid or gas.

35
Q

Inorganic Acids/ Bases/ Salts

A

When organic acids, bases, and salts are dissolved in water, they undergo a process called dissociation, which means that the chemical compounds separate into individual ions. This process occurs due to the polarity of water molecules, which attracts and separates the ions in the chemical compounds. Acids release hydrogen ions (H+) into solution when they dissociate in water, while bases release hydroxide ions (OH-) into solution when they dissociate in water.

When an acid reacts with a base, they undergo a neutralization reaction that results in the formation of a salt and water. The salt is formed when the positively charged hydrogen ion (H+) from the acid combines with the negatively charged hydroxide ion (OH-) from the base to form water (H2O). The remaining ions then combine to form the salt.

36
Q

Carbon and Functional Groups

A

Carbon has the unique ability to form covalent bonds with other carbon atoms. It can exhibit different functional groups, which are specific arrangements of atoms that determine the chemical properties and reactivity of the molecule.

37
Q

Carbohydrates

A

Organic compounds that provide energy and have a 1:2:1 ratio of carbon, hydrogen, and oxygen. They include monosaccharides, disaccharides, and polysaccharides.

38
Q

Monosaccharides

A

The simplest form of carbohydrates, a single sugar that cannot be hydrolyzed further. The primary source of energy for cells. They are readily absorbed and used for cellular processes, and can be converted into other forms such as glycogen or fat. Examples include glucose.

39
Q

Disaccharides

A

Comprised of two monosaccharides joined together. Unique combinations of monosaccharides, for example, sucrose is a combination of glucose and fructose. They are broken down into monosaccharides during digestion to allow for absorption.

40
Q

Polysaccharides

A

Complex carbohydrates with many linked together, diverse structures and functions including starch, cellulose, and glycogen. They serve as energy storage molecules and structural components, acting as a long-term energy reserve.

41
Q

Lipids

A

A diverse group of organic compounds that are insoluble in water but soluble in organic solvents. Composed of carbon, hydrogen, and oxygen. They function in energy storage, insulation, and protection. Examples include fats, oils, and cholesterol.

42
Q

Fatty Acids

A

Building blocks of many lipids, long hydrocarbon chains with a carboxy group at one end. They can be saturated or unsaturated. Function as an energy source for cells and are essential for the synthesis of various molecules. They also play roles in cell signaling and act as precursors for the production of hormones and bioactive compounds.

43
Q

Triglycerides

A

The most common type of dietary fat and the primary storage form of fat in the body. They consist of 3 fatty acids attached to a glycerol molecule. Serve as a concentrated energy source, providing long-term fuel for cellular processes. Stored in adipose tissue, they can be broken down to release fatty acids when the body needs energy.

44
Q

Phospholipids

A

Major components of cell membranes consisting of a glycerol molecule, 2 fatty acid chains, and phosphate groups of both hydrophilic and hydrophobic properties. They form the bilipid layer of cell membranes.

45
Q

Steroids

A

A class of lipids characterized by a four-ring structure. Cholesterol is a type of steroid lipid found in cell membranes. Vital in cell membrane structure and fluidity. Serve as a precursor for the synthesis of steroid hormones such as estrogen, testosterone, and cortisol.

46
Q

Eicosanoids

A

Groups of signaling molecules derived from polyunsaturated fatty acids. They play a role in regulating inflammation, blood clotting, and muscle contraction.

47
Q

Proteins

A

Definition: Large, complex macromolecules composed of amino acids.

Structure: Amino acids are linked by peptide bonds to form peptide chains.

Functions: Structural components, enzymes, transport molecules, antibodies, hormones.

Levels of structure: Primary, secondary, tertiary, quaternary.

Example: Collagen - a structural protein that forms the framework in the body.

48
Q

Regulatory Protein

A

Definition: Regulate various physiological processes.

Example: Insulin regulation.

49
Q

Contractile Protein

A

Definition: Allow shortening of muscles.

Examples: Myosin, actin.

50
Q

Immunological Protein

A

Definition: Aid responses that protect the body against foreign substances.

Example: Antibodies.

51
Q

Transport Protein

A

Definition: Carry vital substances through the body.

Example: Hemoglobin transports oxygen in blood.

52
Q

Catalytic Protein

A

Definition: Act as enzymes that regulate biochemical reactions.

Examples: Salivary amylase.

53
Q

Amino Acids

A

Definition: Amino acids are building blocks joined by peptide bonds. Linear sequences of amino acids make up proteins.

Structure: There are 20 different amino acids with various side chains.

Function: Amino acids serve several functions, including protein synthesis, neurotransmitters, hormone precursors, and energy metabolism.

54
Q

Polypeptides

A

Definition: Polypeptides are chains of amino acids joined by peptide bonds.

Structure: The primary structure of a polypeptide determines its properties and functions.

Function: Polypeptides serve as the building blocks of proteins.

55
Q

Structure organization of proteins

A

Primary structure: The primary structure is the sequence of amino acids in a polypeptide chain.

Secondary structure: The secondary structure is the local folding pattern formed by hydrogen bonding.

Tertiary structure: The tertiary structure is the 3D arrangement of the entire polypeptide chain.

Quaternary structure: The quaternary structure is the interaction of multiple polypeptide chains.

56
Q

Shapes of proteins

A
  1. Globular Proteins: Spherical shape, soluble in water (e.g., enzymes, antibodies).
  2. Fibrous Proteins: Elongated shape, provide structural support (e.g., collagen, keratin).
  3. Membrane Proteins: Embedded in cell membranes, various shapes (e.g., alpha-helical bundles, beta-barrels).
  4. Helical Proteins: Coiled or helical shape (e.g., alpha-helices, coiled-coils).
  5. Beta-Sheet Proteins: Sheet-like structure, formed by beta strands (e.g., beta-sheets, beta-barrels).

Remember: Globular → Spherical, Fibrous → Structural, Membrane → Cell membranes, Helical → Coiled, Beta-Sheet → Sheet-like.

57
Q

Enzymes

A
  • Definition: Catalysts that accelerate chemical reactions in living organisms.
  • Function: Lower activation energy, facilitate specific chemical transformations.
  • Specificity: High specificity for substrates due to complementary active site.
  • Catalytic Mechanism: Provide environment, stabilize intermediates, or participate in reactions.
  • Factors Affecting Activity: Temperature, pH, substrate concentration, inhibitors, activators.
  • Importance: Essential for digestion, metabolism, DNA replication, protein synthesis, signaling.
58
Q

DNA (Deoxyribonucleic Acid)

A
  • Structure: Double-stranded molecule with pentose sugar deoxyribose, phosphate group, and four nitrogenous bases: adenine (A), cytosine (C), guanine (G), and thymine (T).
  • Function: Carries genetic information, serves as a template for RNA synthesis, plays a central role in replication and transmission of genetic material.
  • Base Pairing: A-T (adenine-thymine) and C-G (cytosine-guanine) through hydrogen bonding.
  • Double Helix: Two complementary strands twisted together in a helical structure.
  • Complementary Strands: The sequence of bases in one strand determines the sequence in the other strand.
  • Replication: DNA can replicate, producing two identical copies of itself during cell division.
59
Q

RNA (Ribonucleic Acid)

A
  • Structure: Single-stranded molecule with pentose sugar ribose, phosphate group, and four nitrogenous bases: adenine (A), cytosine (C), guanine (G), and uracil (U).
  • Function: Participates in protein synthesis and gene expression.
  • Types: mRNA (messenger RNA), tRNA (transfer RNA), and rRNA (ribosomal RNA).
  • mRNA: Carries genetic information from DNA to ribosomes for protein synthesis.
  • tRNA: Helps assemble amino acids into proteins.
  • rRNA: Major component of ribosomes, where protein synthesis occurs.
  • Transcription: Process of synthesizing RNA from a DNA template using RNA polymerase.
  • Uracil: RNA contains uracil (U) instead of thymine (T) found in DNA.
60
Q

Adenosine Triphosphate (ATP)

A
  • Structure: Three phosphate groups, ribose sugar, adenine base.
  • Function: Energy storage and transfer.
  • Energy Release: ATP → ADP + Pi releases energy.
  • Recharge: ADP + Pi → ATP requires energy.
  • Anaerobic Phase: ATP generation without oxygen (glycolysis).
  • Aerobic Phase: ATP generation with oxygen (aerobic respiration).
  • Metabolic Role: Powers cellular processes.
  • Universal Energy Carrier.