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Test 2 Flash Cards
UCO Dr. Countaway Test 2 flash cards
174
Biology
Undergraduate 2
10/17/2012

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Cards

Term
What is the cells energy resource?
Definition
ATP
Term
What kind of work do cells do?
Definition

Movement

Biosynthesis

Active Transport

Term
What is the first law of thermodynamics?
Definition
Energy can not be created or destroyed
Term
What is the second law of thermodynamics?
Definition
Events in the universe that will naturally occur, energy will always be released and will increase disorder creating entropy
Term
What is the mechanism that cells use to manage their energy resources?
Definition
The laws of thermodynamics
Term
Energy can't be created or destroyed but it can be what?
Definition
Converted to different forms of energy
Term
What is Bioenergetics?
Definition
The flow of energy in a living system
Term
What is energy transduction?
Definition
The conversion of energy from one form to another
Term
What is thermodynamics?
Definition
The study of energy changes
Term
How doe the second law of thermodynamics apply to cells?
Definition
conversion of energy will only occur if entropy is increased
Term
What does the second law say about ATP?
Definition
When ATP is hydrolyzed some energy is lost as heat not usuable by the cell and some is used to produce movement
Term
What is the energy called that the cell uses to do work?
Definition
Free energy
Term

What do the variables stand for

H=G+S

Definition

H Amount of energy

S entropy

G is free energy

Term

If the final state has more energy than the initial state then the reaction is what?

ΔG>0

Definition
Endergonic process
Term

If the final state has less energy than the initial state then the process is what?

ΔG<0

Definition
An exergonic process
Term
What does in vitro mean?
Definition
The Study of reactions outside the cell
Term
What does in vivo mean?
Definition
The study of reactions inside the cell
Term
What is energy coupling in the cell?
Definition
The use of exergonic reactions to drive endergonic reactions
Term
What currency do cells use to drive energy coupling?
Definition
ATP
Term
What are the products of ATP?
Definition
ADP+Pi
Term
What type of reaction is the hydrolysis of ATP?
Definition
Exergonic
Term
What is the hydrolysis of ATP going to be used for?
Definition
To do work in the cell
Term
What type of molecule is ATP?
Definition
A nucleotide
Term
How much energy does an ATP molecule produce?
Definition
7.3 Kcal per mole
Term
What reactions can ATP drive and Why?
Definition

Reaction that require less than 7.3 kcal per mol

because some energy will be lost as heat.

Term
What is the mechanism of energy transfer of ATP?
Definition
The energy is transfered with the phosphate functional group that is removed through hydrolysis
Term
What is phosphorylation?
Definition
Anything that has had a phosphate functional group added to it
Term
What is dephosphorylation?
Definition
Anything that has had a phosphate functional group removed
Term
What are enzymes and what are their functions?
Definition
A special class of proteins that cataylze reactions
Term
What are the characteristics of enzymes?
Definition

1. they are catalytic proteins

2. they do not effect the free energy transfer

3. They speed up reactions of things that can and will occur.

4. They do not change the amount of energy to start an endergonic reaction

 5. They exihibit substrate specificity

6. effective in small amounts

7. one enzyme can catalyze a reaction multiple times

8. They are sensitive to environmental conditions

9. have optimal conditions temp and pH.

10. enzymes can be regulated

11. some require assistance from other molecules such as ions 

Term
What are ribozymes?
Definition
Catalytic RNA molecules
Term
What is cellular respiration?
Definition
The process by which cells harvest the energy from organic molecules and converting it to ATP
Term
What is a co-enzyme?
Definition
An organic non protein component for catalysis
Term
What are dehydrogenases
Definition
Enzymes that remove hydrogen atoms.
Term
What is the function of NAD+?
Definition
To carry the hydrogen atom broken of by dehydrogenases
Term
What type of molecule is NAD+?
Definition
A nucleotide
Term
What is the energy of activation?
Definition
The energy required to destabilize bonds in a reaction
Term
What do enzymes do to the activation energy?
Definition
The lower it
Term
What is the active site of an enzyme?
Definition
The site of the enzyme where the physical interaction of molecules occurs
Term
What are substrates?
Definition
Molecules that will interact with the active site of and enzyme
Term
How do enzymes work?
Definition
Subtrate bind to the active site then the enzyme goes through a confirmational change that destorts the bonds of the substrates then the products of this all the enzyme to go back to the original confirmation which releases the product.
Term
What are in-vivo characteristics?
Definition
Things known about structures or processes inside a living cell.
Term
What are in-vitro characteristics?
Definition
Things known about structures or processes outside the living cell
Term
What is enzyme kinetics?
Definition
The mechanism for characterizing catayltic activity of enzymes
Term
What factors are looked at in enzyme kinetics?
Definition

1. substrate specificity

2. at what concentrations of molecules do the enzymes work

3. reaction rate

Term
What do we use enzyme kinetics to study?
Definition
Enzyme regulation
Term
What is initial reaction velocity?
Definition
The change in product over time
Term
What is saturation of an enzyme?
Definition
The substrate concentration at which every active site is occupied
Term
What is the maximum velocity of an enzyme?
Definition
The reaction velocity at which you reach saturation
Term
What is the Km?
Definition
The measure of how well enzyme is binding substrate
Term
What value of km makes it a better fit for the cell?
Definition
A lower value
Term
What types of enzyme inhibition are there?
Definition
Irreversible and reversible
Term
What are the two mechanisms of reversible inhibition?
Definition
Competitive inhibition and noncompetitive inhibition
Term
What is competitive inhibition?
Definition
a molecule that looks like the active site of the enzyme and competes with other substrate to bind with the active site to inhibit the production of that enzyme
Term
What happens when you add more substrate than competitive inhibitor?
Definition
The inhibition goes away
Term
What is noncompetitive inhibition?
Definition
The binding of a molecule to the enzyme at a site that is not the active site which cause the active site to change
Term
What is allosteric regulation?
Definition
A mechanism for enzyme regulation that is reversible
Term
What is the mechanism for allosteric regulation?
Definition
An inhibitor molecule that binds to a site that is not the active site called the allosteric site and it changes the confirmation of the enzyme to either inhibit or activate enzymes
Term
What is the first teir of biosynthesis?
Definition
Breaking down molecules to building block to use them to make molecules of the same kind.
Term
What is the second tier of biosynthesis?
Definition
They break down of molecules to Acetyl CoA
Term
What is a futile cycle?
Definition
breaking down a molecule to produce the biosynthetic intermediate to create the same molecule
Term
What is the third tier of biosythesis?
Definition
The breakdown of molecules to create energy
Term
What does enzyme regulation allow cells to do?
Definition
To control what molecules are being used for
Term
What is a metabolic pathway?
Definition
A series of linked reactions
Term
What are transient intermediates in metabolic pathways?
Definition
Intermediates that are produced and immediately consumed
Term
What are anabolic pathways?
Definition
Pathways in which we assemble small molecules into macromolecules AKA biosynthesis
Term
What type of reactions are anabolic pathways?
Definition
Endergonic reactions
Term
What are catabolic pathways?
Definition
The breakdown of molecules to their simplest components
Term
What type of reactions are in catobolism?
Definition
Exergonic
Term
The control of metabolic pathways are controlled by what?
Definition

Enzyme regulation

usually only one ezyme

and 

compartmentation

Term
What makes glucose a good energy source?
Definition

The carbon hydrogen bonds

Taking the hydrogen sharing electrons with carbon and replace them with oxygen 

we go from high energy electrons to low energy electrons

Term
What make electrons high energy?
Definition
When they are being shared equally
Term
When is energy realesed in carbon?
Definition
When it is moved to a more oxidized state
Term
What are the stages of cellular respiration?
Definition

1. glycolysis

2.TCA cycle, Krebbs cycle, Citric Acid cycle

3. electron transport oxidative phosphorylation

Term
Whats the function of glycolysis?
Definition
Breaking down glucose into pyruvate
Term

What is the function of pyruvate processing?

(TCA cycle, Krebbs cycle, Citric Acid cycle)

Definition
harvesting high energy electrons with NAD+
Term
What is the functions of electron transport oxidative phosphorylation?
Definition
ATP synthesis
Term
What are the three mechanisms for ATP synthesis?
Definition

1.Oxidative phosphorylation

2. photophosphorylation

3. subtrate level phosphorylation

Term
What happen in substrate phosphorylation?
Definition
We start with ADP and an organic molecule that has a phosphate functional group. the phophate functional group will be broken off of the substrate and added to ADP to create ATP
Term
What things go into and what comes out in glycolysis?
Definition

1 6-carbon Glucose to 2-3 carbon pyruvate

ADP to ATP

NAD+ to NADH

Term
What has happened when NADH is created?
Definition
We have moved high energy electrons off of a carbon skeleton.
Term
What goe into the TCA cycle and what comes out?
Definition

Pyruvate goes in and CO2 comes out

NAD+ to NADH

FADH2

 

Term
What goes into electron transport and what comes out?
Definition

O2 goes in H2O comes out

ADP goes in ATP comes out

Electrons carried by NADH and FADH2 and NAD+ comes out and FADH

 

Term
Where does glycolysis occur?
Definition
In the cytosol
Term
Where do the pyruvate and high energy electrons produced by glycolysis get shuttled?
Definition
The mithochondria
Term
What is the energy harvested by the electron transport chain used to create?
Definition
A proton gradient.
Term
What is the potential energy of the proton gradient used for?
Definition
To create ATP
Term
What are dehydrogenases?
Definition
Enzymes catalyze the reactions that remove Hydrogen atoms.
Term
What is a Co-enzyme?
Definition
An organic molecule required for dehydrogenase activity
Term
What is the dehydrogase going to move and where is it going to attach it?
Definition

A hydride a hydrogen with its electron and carbons

to NAD+

Term
What do kinase enzymes do?
Definition
Transfer phophate functional groups too or from ATP
Term
Why do cells phophorylate glucose?
Definition
To trap it into the cell
Term
What enzyme is in glycolysis in regulated by allosteric regulation?
Definition
Phophofructokinase
Term
What is the mechanism of making ATP called?
Definition
substrate level phosphorylation
Term
What is the Net equation of glycolysis?
Definition
Glucose+2 ADP+ 2 Pi + 2 NAD+→ 2 Pyruvate + 2 ATP + 2 NADH + 2 H+ + 2 H2O
Term
What is fermentation?
Definition
Energy harvest exclusively from glycolysis
Term
What are the extra step added to glycolysis(in Humans) for fermentation and what are they intended to do?
Definition

pyruvate+ lactate dehydrogenase+NADH+H+→ Lactate + NAD+

Regenerate NAD+

Term
What are the extra steps are added to glycolysis(in yeast) for fermentation?
Definition

1.Pyruvate+ Pyruvate decarboxylase→CO+ Acetaldehyde

2. Acetaldehyde + NADH + H+ + Alchohol dehydrogenase→ Ethyl alchohol

Term
What happen to pyruvate in the presence of oxygen?
Definition
It will cross into the mitochondria and be converted into Acetyl CoA
Term
What mechanism of enzyme regulation is glycolysis controlled by?
Definition
Allosteric regulation
Term
What is the process of feedback inhibition?
Definition
Regulation in response to metabolite concentration
Term
What is covalent modification?
Definition
changing the confirmation of the enzyme through a covalent bond. Ex. phosphorylation and dephosphorylation
Term
What is the key regulation enzyme in glycolysis?
Definition
Phosphofructokinase
Term
What is gluconeogenesis?
Definition
The process of converting pyruvate into glucose
Term
In the presence of oxygen what products of glycolysis are shipped to the mitochondria?
Definition
Pyruvate and the high energy electrons carried by NADH
Term
What is the endosymbiont theory?
Definition
The theory that the mitochondria and the chloroplast evolved from an early prokaryote inside a cell.
Term
What evidence supports the endosymbiont theory?
Definition

The two membranes of the mitochondria where one was the plasma membrane of the cell that consumed it

Mitochondrial DNA that is functional

has its own ribosomes

mitochondria devide independently of the host cell and devide by a process similar to binary fission

 

Term
What is the pathway of Pyruvate into the mitochondria?
Definition
It crosses the outer membrane then the inner membrane into the mitochondrial matrix.
Term
[image]
Definition

A. Inner membrane

B. Outer membrane

C. Matrix

D. Cristae

Term
What is pyruvate processing?
Definition
The conversion of pyruvate to Acetyl CoA
Term
How is Pyruvate Converted to Acetyl CoA?
Definition
With the enzyme pyruvate dehydrogenase
Term
What is special about FADH?
Definition
it is the only high energy electron acceptor in the TCA cycle and is directly embedded in the electron transport chain
Term
How many energy harvesting reactions occur in the mitochondria?
Definition

5

1 in pyruvate processing

4 in the TCA cycle

Term
What happens to the electron carried by NADH that were produced in glycolysis?
Definition
NADH passes its electrons to a carrier with the presence of oxygen and they lose a little energy
Term
How do electron move through the electron transport chain?
Definition
The electrons pass through the components of the electron transport chain. as they pass through they lose energy in discrete packages. by the time the reach the last component they are now low energy electrons. oxygen then picks up the low energy electrons. the energy that was carried by the high energy electrons is used to create a proton gradient and a voltage as well as a pH greadient.
Term
How does the mitochondria produce ATP?
Definition
 the mitochondria  pumps protons into the inner membreane space due to the Proton gradient created by the electrons of the electron transport chain. In the inner membrane ATP synthase is embedded. ATP has two components. The transmembrane domain acts as a proton channel and when it gets the signal it opens up and allow the protons to diffuse back across the membrane. at the catalytic site the protons Physically attatch Which causes the catalytic site to turn which attatches the phophate to the ADP to make ATP
Term
Where does all the ATP made by ATP synthase end up and where does it get transported?
Definition
In the Mitochondrial matrix then it gets transported out to the cytosol
Term
What is the proton-motive force?
Definition

The gradient created by protons

which is a pH gradient and an electrochemical gradient

Term
What is chemiosmosis?
Definition
The coupling of potential energy of a proton motive force to ATP synthesis
Term
What are the components  of the electron transport chain?
Definition
Complex 1 2 3 and 4
Term
What is complex 1 of the electron transport chain?
Definition
The complex that recieves the high energy electrons from NADH
Term
What is complex 2 of the electron transport chain?
Definition
The complex that includes succinate dehydrogenase and  accepts the electrons from FADH2
Term
What is complex 3 of the electron transport chain?
Definition
The complex that recieves all the electrons from complex 1 and 2
Term
What is complex 4 of the electron transport chain?
Definition

The complex that recieves all the electrons leaving complex 3 also called cytochrome oxidase

is the final stop 

the electrons are low energy that are going to be picked up by oxygen to form water

Term
What is significant about the complexed of the electron transport chain?
Definition
They are multiprotein complexes
Term
How is the precision of movement in the complexes of the electron transport chain maintained?
Definition
Because electrons are passed to molecules that have a slightly higher electronegativity then eventually they are passed to oxygen which is the most electronegative.
Term
What is redox potential?
Definition
The tendency of molecules to give up electrons
Term
What redox potential do stron reducing agents have?
Definition
A negative redox potential.
Term
What redox potential do weak reducing agents have?
Definition
A positive redox potential
Term
What is the reducing agent?
Definition
The molecule that has given up an electron and has become oxidized
Term
What is the oxidizing agent?
Definition
The molecule that has accepted an electron and has become reduced
Term

What are prostetic groups?

What are conjugated proteins?

Definition

Non protein components.

The protein component

Term
What are the functions of protetic groups in the electron transport chain?
Definition
To transfer electrons
Term
What is the function of Ubiquinone in the electron transport chain?
Definition
To shuttle electrons from complex 1 to complex 3 and complex 2 to complex 3
Term
Where are packets of energy lost in the electron transport chain and what is this energy used for?
Definition

Complex 1, complex 3, and complex 4.

to be used by other proteins of the protein complexs to pump protons from the mitochondrial membrane to the inner membrane space

Term
What are autotrophs?
Definition
Organisms able to produce their own food supply and produce the worlds food supply
Term
What are heterotrophs?
Definition
Organisms dependent on the food supply created by the autotrophs
Term
What is the stroma?
Definition
The inner most part of the chloroplast
Term
What is a photon?
Definition
A unit of light energy
Term
Within the stroma is a third set of membrane called what?
Definition
A thylakoid
Term
What is the interior of thylakoid called?
Definition
The lumen
Term
Where is light energy and ATP harvested and made in the chloroplast?
Definition
Within the membrane of the thylakoid 
Term
What is a stack of thylakoid called?
Definition
Grana singular granum
Term
What are high energy electrons carried by in plant cells?
Definition
NADPH
Term
What is the purpose of  light dependent reactions?
Definition
To harvest light energy to convert it to ATP and to harvest reducing equivalents carried by NADPH
Term
What is the purpose of Light-Independent Reactions?
Definition
Carbon fixation and synthesis of CHO
Term
What type of reaction is Photosynthesis?
Definition
An endergonic reaction
Term
What type of reaction is cellular respiration?
Definition
An exergonic
Term
What happens in light dependent reactions?
Definition
Plant use energy form sunlight to make ATP and to convert low energy electron to high energy electrons NADPH
Term
What is the Calvin cycle?
Definition
The metabolic pathway of converting COto carbohydrate
Term
What is carbon fixation?
Definition
The conversion of carbon dioxide to an organic molecule
Term
Where do High energy electron come from in the light dependent reactions?
Definition
Water
Term
What is the energy of light dependent on?
Definition

The wavelength of light

a higher wavelength has lower energy

Term
What is the function of photosynthetic pigments?
Definition
Pigments that have the ability to harvest energy form light but only in a certain range of light wavelength
Term
What is a photosystem?
Definition
A package of photosynthetic pigments in a chloroplast
Term
Where is light energy collected by the photosystem sent to?
Definition
The reaction center
Term
How many photosystem are in Photosynthesis?
Definition
2
Term
Where does photosynthesis begin?
Definition
In photosystem 2
Term
What happens in photosystem 2?
Definition

1.Light energy harvested is sent to the reaction center.

2. at the reaction center low energy electrons from water(photolysis)are converted to high energy electrons. which is an endergonic process

3.The electrons are physically moved in the reaction center to convert them into high energy electrons using redox reactions.

4. The high energy electrons leave photosystem 2 and are passed off to an electron transport chain. Which functions just like a mitochondrial electron transport chain

Term
What happens in photosytem 1?
Definition

1. as the electrons move throught the electron transport chain they lose energy and create a proton motive force which is used to make ATP via Photophosphorylation which is catalyzed by ATP synthase.

2. the electrons are passed to photosystem 1

3. Photosystem 1 uses light to convert low energy electrons to high energy electrons and passes them off to NADPH

Term
What is photolysis?
Definition
The splitting of water to produce oxygen, electrons, and protons in photosynthesis
Term
What drives the movement of electron from water in photosynthesis?
Definition
The higher electronegativity of the reaction center of photosystem 2
Term
What is plastoquinone?
Definition
An electron shuttler in the chloroplast electron transport chain.
Term
Where will ATP made in the chloroplast go?
Definition
It will stay and be consumed in the stroma
Term
What is noncyclic photophosphorylation?
Definition
ATP produced by the flow of electrons from ps2 to ps1
Term
What is cyclic photophosphorylation?
Definition
Electrons that are recycled back to ps1 through the electron transport chain to produce a little more ATP without making more NADPH
Term
What is the oxygen we breathe a product of?
Definition
The light dependent reactions in photosynthesis
Term
What is Ribulosebisphosphate carboxylase and what is its function?
Definition
Otherwise known as rubisco in the calvin cyclye it attatches carbon dioxide to ribulosebisphophate.
Term
What happens in the first step of the calvin cylcle?
Definition
RUBISCO attaches CO2 to ribulose bisphospate which immediatly breads down into 2 3-phosphoglycerate
Term
What happens in stage two of the calvin cycle?
Definition

3-phophoglycerate + ATP+NADPH to 1,3-bisphosphoglycerate

1,3 biphosphoglycerate to glyceraldehyde 3-phosphate

Term
What is the third stage of the calvin cycle?
Definition
The use of ATP to regenerate RUBP
Term
What is C3 photosynthesis?
Definition
The process of taking CO2 from the atmosphere and converting it into two molecules of phosphoglycerate.
Term

What is CAM photosynthesis?

 

Definition
the process of fixing carbon dioxide to malate at night then break it down in the morning
Term
What is C4 photosynthesis?
Definition
the process of seperating CO2 with rubisco and conversion of it to malate
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