BIOM20001 Lecture Notes - Lecture 6: Covalent Bond, Hydrogen Bond, Hydrophile
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Protein Structure
a.Different function of proteins and examples:
b. Protein building blocks:
1. atomic composition of building block:
2. "parts" or "functional groups" of the building block:
c. Importance of side chain (R group):
d. Hydrophobic amino acids characteristics:
e. Hydrophilic amino acids characteristics:
f. Charged amino acids characteristics
Copy and complete the table below regarding the characteristics and which groups in the polypeptide interact together at each structural level of the protein.
characteristics | groups interacting | ||
---|---|---|---|
Primary structure | |||
Secondary structure | |||
Tertiary structure | |||
Quartenary structure |
Value: 2
Choose the correct statement(s). You may choose more than one answer.
[mark all correct answers]
a. Proteins are the building blocks of amino acids.
b. Enzymes are a type of protein.
c. Quartenary structure consists of two or more polypeptide chains interacting.
d. Amino acids are made of carbon, hydrogen, nitrogen and phosphorus.
e. The primary structure of a protein is formed due to the interaction of side groups.
Value: 3
Put the following statements regarding the structural levels of a protein formation in the correct order.
Below is a sequence of events. Place them in the order they should occur, number 1 being the first item. Select the step number from the drop down next to each item.
Items to order:
1. Individual amino acids are bonded together via peptide bonds.
2. Two or more polypeptide chains interact via bonds.
3. Hydrogen bonds form between neighboring amino acids within a polypeptide chain allowing the chain to coil or form pleated sheets.
4. Side groups (R) of the individual amino acids interact with each other allowing the protein to assume its three dimensional shape.
Value:4
Put the following statements regarding the structural levels of a protein formation in the correct order
Individual amino acids are bonded together via peptide bonds. | 1 2 3 4 |
Two or more polypeptide chains interact via bonds. | 1 2 3 4 |
Hydrogen bonds form between neighboring amino acids within a polypeptide chain allowing the chain to coil or form pleated sheets. | 1 2 3 4 |
Side groups (R) of the individual amino acids interact with each other allowing the protein to assume its three dimensional shape. | 1 2 3 4 |
Value: 5
Hydrophobic amino acids will be found _______________.
a. In the interior (inner core) of a protein, away from the watery environment.
b. in the interior of a plasma membrane.
c. Both A and B
d. Neither
Value: 6
A protein's function is defined by ____________.
a. enzymatic reactions
b. it's shape.
c. chain of nucleotides.
d. the presence of carbon and hydrogen.
Value: 7
Which of the following is NOT considered a protein function?
a. transport of substances across membrane
b. enzymatic reactions
c. provides structural support
d. carries genetic information
Second messengers play an important role in cellcommunication.
Which of the following best describes their role?
None | ||
integrate, amplify and distribute messages throughout thecell | ||
Release messages to other cells? | ||
Receive information at the cell surface |
What is true of disulfide bonds?
a. | They often occur in the cytosol | |
b. | They are a noncovalent bond | |
c. | They are formed enzymatically in the ER | |
d. | They act as reducing agents | |
e. | they increase protein flexibility |
Which of the following is NOT an example of a cell communicationmolecule?
nucleases | ||
nitric oxide | ||
hormones | ||
kinases |
What is true of binding pockets?
a. | They only occur in the membrane | |
b. | They occur in unfolded proteins | |
c. | They contain electrostatic interactions | |
d. | They contain variable amino acids | |
e. |
What is true of cell signaling?
a. | Extracellular signals transduced by rectors always alter cellbehavior very quickly | |
b. | Some cells require cell signals just to survive | |
c. | Cell signals can be interpreted differently by differentcells | |
d. | B and C only | |
e. | All of the above (A, B and C) |
Histone tails can be modified to change the shape and"tightness" of the nucleosomes. Acetylated histones result in whicheffect?
Open DNA | ||
increased transcription | ||
closed DNA | ||
decreased transcription | ||
1+2 | ||
1+4 | ||
3+4 | ||
2+3 |
Shifting the two bound tRNA from the A and P sites to the E andP sites of the ribosome involves:
a. | The movement of the small ribosome subunit down the mRNAchain | |
b. | The degradation of the A site on ribosome | |
c. | The synthesis of the E site on the ribosome | |
d. | The movement of the large subunit relative to the smallsubunit | |
e. | All of the above |
Intracellular signaling pathways are awesome! What is the onething they can NOT do?
a. | relay the signal, to spread it through the cell | |
b. | nothing, they can communicate any cellular need | |
c. | distribute the signal to more than one effector protein | |
d. | integrate the signal from more than one cellular pathway | |
e. | Amplify the signal received, making the signal stronger |
Specificity of protein/protein and protein/DNA binding isdetermined by what?
Non-covalent bonds | ||
Hydrophobic interactions | ||
Covalent bonds | ||
shape of the binding site | ||
all of the above | ||
none of the above | ||
1,2,3 | ||
1,2,4 | ||
1,3,4 |
The coiling structure of the DNA into chromosomes is achieved bywhat?
alpha helix | ||
beta pleated sheets | ||
chaperone proteins | ||
DNA/Protein complexing |
Which regions (s) of the DNA are found in the final protein?
a. | poly-A tail | |
b. | A and B | |
c. | Exons | |
d. | UTRs | |
e. | Introns |
Metabolic processes can be turned "on" and "off" by chemicalmodifcation.
Which chemical modification do we associate with changing theactivity of an enzyme in a transient/non-permanent manner?
Phosphorylation | ||
Ubiquitination | ||
Methylation | ||
Acetylation |
DNA hybridization involves attaching a florescent dye towhat?
a. | Antibody | |
b. | Nuclear stain | |
c. | Probe DNA | |
d. | tRNA | |
e. | rRNA |