Which pairs of amino acid side chains might you expect to find in a salt bridge in a protein at pH 7.0? A) Serine and Glutamate B) Arginine and Phenylalanine C) Histidine and lysine D) Aspartate and Histidine E) Aspartate and Arginine
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- For each of the following amino acids: 1) describe what the important functional group of the amino acid side chain is, 2) identify the charge of the side chain, 3) name another component in the structure that the amino acid might interact with, and 4) indicate how the interaction with the component listed in 3) might be occurring (i.e., electrostatic interaction, hydrogen bond, hydrophobic interaction, etc.) a) Asp153 b) Arg166 c) Lys167Select the term in column B which best matches the description in column A. There are more terms then needed. Column A Column B 1. The pentose sugar found in DNA. a) Cis fatty acid b) Trans fatty acid c) Coenzyme d) Cofacipr 2. Commonly referred to as "insoluble fiber". 3. Considered to be an amphipathic molecule. 4. A molecule with the formula C18H3602 is probably a e) Phospholipid 5. Bond created during the formation of the primary structure of a protein. ) Glycogen 6. A non-protein organic molecule needed for proper enzyme functioning. g) Cellulose 7. Pyrimidine base found only in RNA. h) Galactose i) Fructose 8. Increasing the number of these molecules in the cell membrane would increase the permeability of the cell membrane. i) Thymine k) Uracil 9. Bond which connects nucleotide monomers together. 1) Fatty acid m) Disaccharide n) Peptide bond o) A-Helix p) B-Pleated Sheet q) Ribose r) Deoxyribose 10.The side chain of asparagine contains: OA) a hydroxyl group B) an amine group OC) a carboxyl group OD) a sulfydryl group OE) none of the above
- 1. A) Draw a guanylate nucleotide and label the three main structural features B) Does this contain a purine or pyrimidine base? C) Would this nucleotide be found in DNA or RNA? Why? D) To which carbons of the furanose sugar are the other important structural features attached? E) Draw an adenylate residue bonded to the guanylate from below as it would be in a nucleic acid chain F) Label the phosphodiester bond G) Label which side of your dinucleotide is the 5' and 3' side H) Draw the nucleotide residues that base pair with guanylate and adenylate in the position and location that would permit pairing 1) Draw the hydrogen bonds that occur in both pairings.Deduce the amino acid sequence of a polypeptide from the following:1. Acid hydrolysis gives Ala2, Arg, Lys2, Met, Phe, Ser22. Carboxypeptidase gives Ala3. Trypsin digestion gives 4 peptides a) Ala, Arg b) Lys, Phe, Ser c) Lys d) Ala, Met, Ser4. CNBr treatment gives a) Ala, Arg, Lys2, homoserine, Phe, Ser b) Ala, Ser5. Thermolysin is a protease that cuts on the N-terminal side of hydrophobic amino acids (substrate preference is Leu, Ile, Phe, Trp, Tyr, Val). Thermolysin treatment of our polypeptide yields 2 peptides a) Ala, Arg, Ser b) Ala, Lys2, Met, Phe, SerIn the peptide Ala – Gly – Val – Phe – Tyr, a carboxylate (-COO-) group would bound in which amino acid? A) Gly b) Ala c) Phe d) Tyr Which amino acid forms disulfide bonds? A) Met b) Cys c) Arg d) Pro The sequence Gly-Pro-Pro is often found in collagen. This would be a description of: a) primary structure b) secondary structure c) tertiary structure d) quaternary structure
- Given this short polypeptide: Met-Ala-Gly-Ser A) Which is the amino terminal amino acid? B) How many amino acids are in this polypeptide? C) How many peptide bonds are in this polypeptide? D) Which amino acid has the smallest side chain? E) Which amino acid contains sulfur?The R group or side chain of the amino acid serine is -CH2-OH. The R group or side chain of the amino acid leucine is -CH2-CH-(CH3)2. Where would you expect to find these amino acids in a globular protein in aqueous solution ?A) Both serine and leucine would be on the exterior of the globular protein. B) Both serine and leucine would be in the interior and on the exterior of the globular protein. C) Serine would be in the interior, and leucine would be on the exterior of the globular protein. D) Both serine and leucine would be in the interior of the globular protein. E) Leucine would be in the interior, and serine would be on the exterior of the globular protein.Formulate a dipeptide (draw its structure) from the amino acids serine (ser) and alanine (ala) and indicateo. a) Peptide bond. b) Amino end c) Carboxyl end. d) Radicals (-R)
- A portion of a polypeptide chain contains the following sequence of amino acids: (-Met, -Leu, -Ala, -Cys, -Asp-) a.) Which amino acid can form a disulfide bond? b.) Which amino acids are likely to make the polypeptide more soluble in water? c.) Which amino acids are likely to make the polypeptide less soluble in water? d.) How does the primary structure of a protein affect its tertiary structure?3) The following is the amino acid sequence of bradykinin, a peptide released by certain organisms in response to wasp stings: Arg – Pro – Pro - Gly – Phe – Ser – Pro – Phe – Arg What amino acids or peptides are produced when bradykinin is treated with each of the following reagents? a) with Carboxypeptidase c) with Trypsin b) with Chymotrypsin d) with DNFBa) Can a carbon with a double bond have a D or L designation? Explain. b) name and describe the levels of protein structure. c)What is the complementary bass player for the following sequence: CGATAATGC. d) in base pairing, why do we never see AG, GA, CT or TC forming complementary base pairs? e) why is vegetarianism a more energy intensive process (from the organism standpoint) than being omnivores? [DON'T EVEN THINK OF STATING ANYTHING ABOUT FIBER, BULK, AND/OR CELULOSE!!!!] f) why is significant serum (in the bloodstream) cholesterol reduction so difficult, and why do most of the drugs designed to reduce cholesterol target the liver?