KP Ramirez Week 2

Notes

Allele Protein Structures

• Green:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Tyr-Trp-Arg-Gln

1. Met non polar, hydrophobic. Ser polar uncharged. Asn polar uncharged. Arg polar uncharged. His Polar uncharged. Ile Nonpolar hydrophobic. Leu Nonpolar hydrophobic. Val Nonpolar hydrophobic. TYR polar uncharged. TRP nonpolar hydrophobic. Arg polar uncharged. Gln polar uncharged.

• Blue:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Tyr-Cys-Arg-Gln

TYR-polar uncharged, CYS-polar uncharged

• Yellow:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Trp-Cys-Arg-Gln

TRP-Nonpolar hydrophobic, CYS-polar uncharged

• Red:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Phe-Cys-Arg-Gln

PHE-nonpolar hydrophobic CYS-Polar uncharged

• White:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Val-Cys-Arg-Gln

Val-Nonpolar hydrophobic, CYS polar uncharged.

Flowers

• Green green/green
• Green2 Blue/Yellow
• Red: Red/nothing
• White: White/White

Phenotypes & Genotypes

• Green-CgCg
• White-CwCw
• Red -CrCr
• Blue -CbCb
• Orange-Needs yellow and red CrCy
• Yellow-CyCy
• Purple -Needs Red and blue CrCb
• Black -Needs red and green CrCg

Charged, acidic (-) basic (+) form ionic bonds Uncharged polar form H-bonds Hydrophobic(nonpolar) hydrophobic interaction, van der waals

There are positions that are important, look at the characteristics of amino acid side chains. Figure out how to make the purple flowers, look at the properties and make an educated guess

Assignment

Work as a class, using the data blog to:

1. What are the differences in the amino acid sequences of the proteins produced by the

alleles you define in Part I?

• The differences are present in the 10th and 11th position of the amino acid sequences.

1. What features of the amino acid sequence make a protein pigmented?

• Proteins of similar function have similar amino acid composition and sequence.The correlations between structure and function can be attributed to the properties of the amino acids that compose proteins. In this assignment we observed how the particular folding sequences were related to the pigmentation of the flowers.

1. What features of the amino acid sequence make a protein a particular color?

• This would deal with the aromaticity of the side chains.

1. How do the colors combine to produce an overall color? How does this explain the genotype-phenotype?

• 1. Which proteins are found in each of the four starting organisms?
• Green1=Green/Green
• Green2=Blue/Yellow
• Red=Red/-
• White=White/White

1. Using this knowledge, construct a purple protein.

See below

Put your data in the tables below:

1. allele color amino acid sequence (highlight differences)

1. What features of a protein make it colored?
2. What features of the amino acid sequence make a protein a particular color?
3. How do the colors combine to produce an overall color? How does this explain the genotype-phenotype rules you found in part (I)?
4. Which proteins are found in each of the four starting organisms?

• Green:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Tyr-Trp-Arg-Gln

• Blue:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Tyr-Cys-Arg-Gln

• Yellow:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Trp-Cys-Arg-Gln

• Red:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Phe-Cys-Arg-Gln

• White:

Met-Ser-Asn-Arg-His-Ile-Leu-Leu-Val-Val-Cys-Arg-Gln

• 1. Methionine
  2. Serine
  3. Asperigine
  4. Arginine
  5. Histidine
  6. Isoleucine
  7. Luecine
  8. Valine
  9. Glutamine

Journal Assignments

KP Ramirez Week 2	KP Ramirez Week 6	KP Ramirez Week 10	KP Ramirez Week 14
KP Ramirez Week 3	KP Ramirez Week 7	KP Ramirez Week 11	KP Ramirez Week 15
KP Ramirez Week 4	KP Ramirez Week 8	KP Ramirez Week 12	KP Ramirez Week 16
KP Ramirez Week 5	KP Ramirez Week 9	KP Ramirez Week 13

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Links

BIOL398-01/S10:Week 2