Figure 66. Load the file BRD.pdb in yasara. This is bacteriorhodopsin from purple bacteria. This molecule converts light energy into a proton gradient.
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After completing the "Membrane protein" part of the structure section you will: |
About a third of the proteins in your body are membrane-associated. These proteins are special because their surface tends to be very hydrophobic. Therefore their structures are difficult to determine.
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Figure 66. Load the file BRD.pdb in yasara. This is bacteriorhodopsin from purple bacteria. This molecule converts light energy into a proton gradient. |
Question 89: Look at the distribution of hydrophobic and hydrophylic amino acids in bacteriorhodopsin. Anything striking?
Answer
Question 90: Can you think of a way for this molecule to pump protons?
Answer
EU name: 3D-602
(From: ../step5 )
(Date: Nov 8 2016 ../step)
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Figure 67. Load the file AQUA.pdb in yasara. This is the aquaporin O from bovine lens fiber. |
Question 91: Look at the distribution of hydrophobic and hydrophylic amino acids in aquaporin. Anything striking?
Answer
Question 92: Study the helices. Do they all go completely through the membrane?
AnswerBert de Groot made a nice movie for us of how water moves through the aquaporin; he also made a very big, high resolution movie of one single channel on its own.