BCH311H1 Lecture : Lecture notes

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redtermite204

21 Jan 2012

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Last lecture - primary sructure of dna = bases, sugars connected by phosphate backbone - single strand of dna looks like - secondary structure - two strands come together, wound up helix, characteristic of b form. Dna, not biologically relevant type of nucleic acid. How accessible or not will influence interaction. Take a helical section and unpaired section to stabilize folds and loops of trna. Can cut off unwanted interaction by turning off hydrogen bonding donor or acceptor by turning it into a methyl group. If not pseudouridine, uridine would be rotated so no interaction. D loop"s g reaching out to contact pseudouridine to bring loops together. Backbone of dna certaind istance apart; in rna, backbones close, in order for that to not be prohibitive electronegatically. Mg bind to phosphate in backbone, screen the charges. Also free mg ion in water, has sheel of water molecules around it.

Related Questions

1. The level of protein structure that is stabilized primarilyby non-covalent interactions between the side chains within asingle polypeptide chain is refered to as its:

A) primary structure

B) secondary structure

C) tertiary structure

D) quaternary structure

E) none of the above

2. Collagen, a strong fibrous protein found in connectivetissue, bone, and the extracellular matrix, has a structure inwhich three left-handed helices wind around each other to form aright-handed triple helix. The primary structure of collagen has arepeat unit of -(Gly-X-Pro)- Which of the following bonds stabilizethe collagen triple helix? (mark all that apply)

A) Hydrogen bonds between hydroxyproline residues

B) Hydrogen bonds between N-H and C=O

C) Ionic bonds between amino acid side chains

D) Hydrogen bonds between charged amino acids

3. The non-covalent forces that stabilize the Beta-strandconformation of peptides include:

A) H-bonds between amide C=O and amide NH

B) Van der Waals packing between the peptide backbone atoms

C) Van der Waals packing due to side chain interdigitation

D) Only A and B above

E) None of the above

4. What is the approximate length difference of a 22-kDasingle-stranded ?-helical protein segment vs. a 22-kDasingle-stranded ?-strand protein segment? Assume a mean residuemass of 110 Da. Show work.

5. Circular dichroism measurements have shown that the peptidebackbone of poly-l-lysine (KKKKKKK) adopts a random coilconformation at pH 7.0, but becomes ?-helical as the pH is raisedabove 10. This observation is known as the

magentaotter572

Choose all of the correct statements about protein structure. Hint: For each level of structure, only one statement is correct.

	Primary structure is due to covalent bonding between amino acids.
	Primary structure is due to hydrogen bonding between amino acids.
	Primary structure is due to hydrogen bonding, ion-ion interactions, and van der Waals interactions between amino acids.
	Secondary structure is due to covalent bonding between amino acids.
	Secondary structure is due to hydrogen bonding between amino acids.
	Secondary structure is due to hydrogen bonding, ion-ion interactions, and van der Waals interactions between amino acids.
	Tertiary and quaternary structure is primarily due to covalent bonding between amino acids.
	Tertiary and quaternary structure is primarily due to hydrogen bonding between amino acids.
	Tertiary and quaternary structure is primarily due to the hydrophobic effect, hydrogen bonding, ion-ion interactions, and van der Waals interactions.

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BCH311H1 Lecture : Lecture notes

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