Section 07’s Data Blog

This is everything:

• There must be at least 13 amino acids
• 6 hydrophilic, 7 hydrophobic
• hydrophobic must form a blob/core
• Color-specific amino acids must be located in the same blob/core

Hypothesis: There must be a hydrophobic blob/core in order to show color.

Test: We placed a the hydrophobic amino acid (phe) at the end of a hydrophilic chain which connected to a hydrophbic blob.

Results: The Phe at the end of the hydrophilic chain wrapped around to join back into the hydrophobic core.

Conclusion: The amino acids which specify color will always be located in the hydrophobic blob/core.

original red amino acid sequence

Tyr added to the 1st position

Tyr added to the 2nd position

Tyr added to the 3rd position

Tyr added to the 4th position

Tyr added to the 5th position

Tyr added to the 6th position

Tyr added to the 7th position

Tyr added to the 8th position

Tyr added to the 9th position

Tyr added to the 10th position

Tyr added to the 11th position

Tyr added to the 12th position

Tyr added to the 13th position

Tyr added to the 14th position

HYPOTHESIS:

1) there needs to be a ring present for there to be purple protein

2) red proteins will be compact

3) Tyr and Phe must be close to one another in order to have a purple protein

EXPERIMENT: for all experiments, I manipulated the original red amino acid sequence by inserting Tyr into it in various spots in the sequence and then folding the protein.

RESULT:

1) not true

2) not true

3) not true

CONCLUSION:

?

All the color changing amino acids have rings attached to them.  Also each of them have a CH2 attached to them.

Hypothesis: You can switch any amino acid with another amino acid, if it is not one of the ones that contribute to color, as long as the amino acid being substituted has the same characteristics (h-bonds, ‘phobic, ‘philic) and the color of the protein will be the same.

Experiment: We switched amino acids with same characteristic amino acids in the same place for some different colors, while keeping the amino acid(s) that contributed to color the same.

Results: The colors of the protein stayed the same.

Conclusion: Our hypothesis was correct.

Hypothesis: Phe and Tyr make purple, and are always next to each other in the amino acid sequence and/or in the folded sequence.

Test: We altered a purple protein by placing multiple Ile amino acids between the Phe and Tyr.

Results: The protein maintained a purple color, despite the fact that Phe and tyr were not connected in either the amino acid sequence or the folded sequence.

Conclusion: Phe and tyr do not need to be connected to still give the purple color to the protein.

Red — Phe

Blue — Tyr

Green — Tyr and Trp

White — Anything not a color

Yellow — Trp

Black — Tyr and Trp and Phe

Orange — Trp and Phe

Purple — Phe and Tyr

HYPOTHESIS:  by manipulating the red protein sequence and switching out one amino acid in it for Tyr (the amino acid that is found in the blue protein sequence), we can obtain a purple protein.

EXPERIMENT:  we started with a red protein sequence and then exchanged the amino acid Val for Tyr in hopes of getting a purple protein.

RESULT: we got a white protein

CONCLUSION: we were wrong - it did not work

Hypothesis: The color will change when the fourth amino acid from the right is changed to a different amino acid with the remaining amino acids unchanged.

Experiment:  We changed the amino acid Trp (yellow), which was in the fourth spot from the right, to Ala which made the protein white. We kept the entire protein sequence the same with only that one change.

Results:  The results made the protein white, proving our hypothesis that the fourth amino acid from the right would change the entire color.

Conclusion:  The hypothesis is correct. The color was determined by the location on the amino acid.

Hypothesis: Just because there are 7 hydrophobic amino acids it doesn’t mean it has any color

Experiment:7 hydrophobic amino acids and 4 hydrophilic amino acids

Result: Came out to be the color white.

Conclusion: Our hypothesis was correct, so there is an absense of color.