VIETNAM NATIONAL UNIVERSITY

HO CHI MINH INTERNATIONAL UNIVERSITY

BIOINFORMATICS
ASSIGNMENT 6
PRIMARY STRUCTURE & PROTEIN LOCALIZATION

GROUP 21:
1. Võ Huỳnh Như - BTBTIU18367
2. Cao Sang - BTBTIU18324
3. Lê Thục Đoan Trinh - BTBTIU18254
4. Nguyễn Uyên Y Xuân - BTBTIU18301

Date of submission: December 28, 2020

Question 1: Performing Phobius for the following protein identifier,
whether they have transmembrane segments if so specify how many
are present and their position (the starting and ending amino acids).
Whether they have a signal peptide if so what are the starting and
ending amino acids of N-region, H-region and C-region. Prepare the
results as a table.
a. Q6IWH7

Figure 1: Q6IWH7

b. P0C9J4

Figure 2: P0C9J4
c. P14009

Figure 3: P14009

d. Q43495

Figure 4: Q43495

e. P50927

Figure 5: P50927
 Q6IWH7 P0C9J4 P14009 Q43495 P50927
Transmembrane 9 2 0 0 0
segments
Position of 1/ Start: 346 1/ Start: 123
transmembrane
End: 376 End: 144
2/ Start: 396 2/ Start: 156
End: 418 End: 173
3/ Start: 424
End: 441
4/ Start: 498
End: 524
5/ Start: 544
End: 565
6/ Start: 586
End: 608
7/ Start: 715
End: 738
8/ Start: 762
End: 786
9/ Start: 843
End: 862
Signal peptide Yes Yes Yes Yes Yes
(1 to 22) (1 to 17) (1 to 25) (1 to 30) (1 to 19)
Amino acids of Starting: 1 Starting: 1 Starting: 1 Starting: 1 Starting: 1
N-region
Ending: 3 Ending: 2 Ending: 8 Ending: 14 Ending: 2
Amino acids of Starting: 4 Starting: 3 Starting: 9 Starting: 15 Starting: 3
H-region
Ending: 11 Ending: 13 Ending: 20 Ending: 26 Ending: 14
Amino acids of Starting: 12 Starting: 14 Starting: 21 Starting: 27 Starting: 15
C-region
Ending: 22 Ending: 17 Ending: 25 Ending: 30 Ending: 19
Question 2: Performing ProtParam for the accession number
P29139. Report the following parameters:

Figure 6

a. Number of amino acids: 326

b. Molecular weight: 35173.62
c. Theoretical pI: 4.73

Figure 7
d. Total number of negatively charged residues (Asp + Glu): 47
e. Total number of positively charged residues (Arg + Lys): 28

Figure 8
e. Extinction coefficient
Ext. coefficient 26025
Abs 0.1% (=1 g/l) 0.740, assuming all pairs of Cys residues form
cystines
Ext. coefficient 25900
Abs 0.1% (=1 g/l) 0.736, assuming all Cys residues are reduced
 Figure 9
f. In vivo half-life
30 hours (mammalian reticulocytes, in vitro).
>20 hours (yeast, in vivo).
>10 hours (Escherichia coli, in vivo).

Figure 10

g. The instability index (II) is computed to be 29.84

Figure 11
i. Is this protein acidic or basic and stable or unstable? Explain.