Question a to d, there are four options to choose, Ionic Bond, Hydrogen Bond, Hy

Question

Question a to d, there are four options to choose, Ionic Bond, Hydrogen Bond, Hydrophobic Interaction, or Van der Waals Interaction

Question e, we can choose Phenyalanine, Aspartic acid, Glutamine, Lysine or Serine.

Consider a hypothetical protein, protein G which is shown in green below. It binds the molecule diphenhydramine (also known as benadryl) which is shown in black, red, and blue phe 127 CH 3 eu 45 CH 3 asn 235 Four amino acids are involved in the binding of diphenhydramine to protein G through non-covalent interactions A table of structures of the amino acids can be found here a) Which interaction is most likely occurring between the side chain of phe127 and the nearest part of diphenhydramine? Choose the strongest appropriate bond Select an option b) Which interaction is most likely occurring between the side chain of leu45 and the nearest part of diphenhydramine? Choose the strongest appropriate bond Select an option c) Which interaction is most likely occurring between the side chain of lys22 and the nearest part of diphenhydramine? Choose the strongest appropriate bond Select an optiorn d) Which interaction is most likely occurring between the side chain of asn235 and the nearest part of diphenhydramine? Choose the strongest appropriate bond Select an option e) Suppose you wanted to make the interaction between the the side chain of amino acid at position 235 and diphenhydramine stronger. Which of the following amino acids would be the best choice with which to replace asn235? Choose the one best answer. Select an option'

Explanation / Answer

Ionic bonds are formed with charged aminoacids.In the given options,lysine is positively charged aminoacid.This is a weak bond.

Incase of phenylalanine, a aromatic aminoacid which is essentially non polar amino acids,via hydrophobic interactions or vanderwaals forces.Hydrophobic interaction arise due to change in entropy when non polar groups are exposed to protein molecule.

Asparagine forms hydrogen bond.It is a weak electrostatic attractive force.These are stronger than most non covalent bonds.

Leucine has a non polar side chain,held with non hydrophobic interactions.

Non polar aminoacid posses mostly hydrophobic interactions whereas polar charged amino acids can be Ionic or hydrogen bond or vanderwaals forces.

In the given question,phenylalanine, leucine are non polar side chain possessing aminoacids.

F)G protein will bind more strongly than diphenhydramine.

E)lysine,because it forms bond stronger due to the presence of oxygen where it undergoes interstatic hydrogen bonding.oxygen forms electro negative bond more stronger next after nitrogen atom.

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