#Question id: 721
#Part-B Specialized Branches in Biotechnology
Addition of urea leads to a two-state transition between α-helix and random coil conformation. It has been observed that [θ]222 of the polypeptide is -11000 deg cm2 dmol-1 in the presence of 6M urea. Initially it was observed that tile values of mean residue ellipticity at 220 nm ([θ]220) are -36000, and +4000 deg cm2 dmol-1 for α-helix, and random coil conformations of this polypeptide. The percentage of the polypeptide in α-helix conformation is:
#Question id: 723
#Part-B Specialized Branches in Biotechnology
Common structural elements in proteins such as α-helices or β-sheets are characterized by uniformly repeating, energetically favorable main chain conformations which additionally exhibit a completely saturated hydrogen-bonding network of the main chain NH and CO groups. Although polyproline or polyglycine type II helices (PPII or PGII ) are frequently found in proteins, they are not considered as equivalent secondary structure elements. Which of the following statements are correct about PP and PGs.
A. PGII -like helices form hexagonal bundles which appear to fulfill the criterion of a (largely) saturated hydrogen-bonding network of the main-chain groups
B. main chain NH and CO groups of the central PGII -helix are saturated by either intra- or intermolecular hydrogen-bonds, resulting in a self-contained hydrogen-bonding network
C. The formation of the right-handed PPI helix is possible only with proline residues because of the required cis conformation.
D. PPII helices seem to be stabilized by main chain-water hydrogen bonds (in the absence of main chain- main chain H-bonds), and tend to have a regular pattern of hydrogen bonds with water. After this, it is not surprising, that PPII helices are found mostly on the protein surface.
#Question id: 725
#Part-B Specialized Branches in Biotechnology
At 25°C values of [θ]222, the mean residue ellipticity at 222 nm, are - 33,000 and -3,000 deg cm2 dmol-1 for a polypeptide existing in α- helical (α) and β-structure (β), respectively. If this polypeptide undergoes a two-state heat-induced α-β transition, and a value of [θ]222 = -15,000 deg cm2 dmol-1 is observed at 60°C, then this observation leads to the conclusion that the α helix conversion to β- structure is:
#Question id: 727
#Part-B Specialized Branches in Biotechnology
26-residue peptide composed of alanine and leucine shows a circular dichroism (CD) spectrum characteristic of α-helix at 50°C in 5 mM phosphate buffer at pH 7.4. When the peptide solution is cooled gradually to 25°C, and the CD spectra are recorded at different temperatures, the most likely observation will be that
#Question id: 729
#Part-B Specialized Branches in Biotechnology
Which of the following is correct about the collagen triple-helix domain
a. is rich in glycine. b. is rich in proline.
c. is rich in hydroxyproline. d. is an alpha helix.
#Question id: 732
#Part-B Specialized Branches in Biotechnology
Ramachandran plots can help increase the accuracy of models derived from x-ray crystallography data. The plot below was created by measuring phi, and psi for each amino acid residue in a 2.2 A resolution crystal structure. In the plot, which excludes Gly and Pro residues, selected residues (dots) are numbered 1 through 5.
Which of the following statements can be correctly stated for this plot in reference to selected residues?
A. Residues 1 and 3 are in either B sheets
B. residue 2 is in a right-handed a helix, and residue 4 is in a left-handed a helix.
C. If residue 5 were Gly, it might be in an acceptable position in the plot