HOMEWORK 7

1. Using DNA -> Protein translator to translate gene.

Ans:

to translate: Met N K P Q T I Y E K L G G E N A Met K A A V P L F Y K K V L A D E R V K H F F K N T D Met D H Q T K Q Q T D F L T Met L L G G P N H Y K G K N Met T E A H K G Met N L Q N L H F D A I I E N L A A T L K E L G V T D A V I N E A A K V I E H T R K D Met L G K Stop


2. Calaulate pI, molecular weight, amino acid composition of the protein.

Ans:

GO TAKE A LOOK!


3. Predict a-helice of the protein.

Ans:

Window size: 9
Relative weight of the window edges compared to the window center (in %): 100

Using the scale alpha-helix / Chou & Fasman, the individual values for the 20 amino acids are:
Ala: 1.420 Arg: 0.980 Asn: 0.670 Asp: 1.010 Cys: 0.700 Gln: 1.110
Glu: 1.510 Gly: 0.570 His: 1.000 Ile: 1.080 Leu: 1.210 Lys: 1.160
Met: 1.450 Phe: 1.130 Pro: 0.570 Ser: 0.770 Thr: 0.830 Trp: 1.080
Tyr: 0.690 Val: 1.060 Asx: 0.840 Glx: 1.310 Xaa: 1.000

So, the higher the value is, the more possible the protein is to be in a-helix.

 

GO TAKE A LOOK!


4. Compute the hydrophobic profile of the protein (show the window and weight you used).
Ans:

Window size: 9
Relative weight of the window edges compared to the window center (in %): 100

Using the scale Hphob. / Kyte & Doolittle, the individual values for the 20 amino acids are:
Ala: 1.800 Arg: -4.500 Asn: -3.500 Asp: -3.500 Cys: 2.500 Gln: -3.500 Glu: -3.500 Gly: -0.400 His: -3.200 Ile: 4.500 Leu: 3.800 Lys: -3.900 Met: 1.900 Phe: 2.800 Pro: -1.600 Ser: -0.800 Thr: -0.700 Trp: -0.900 Tyr: -1.300 Val: 4.200 Asx: -3.500 Glx: -3.500 Xaa: -0.490
So, the higher the value is, the more hydrophobic the a.a. is.

GO TAKE A LOOK!!