https://github.com/zmactep/protparam.jl
ExPASy tool clone written on Julia
https://github.com/zmactep/protparam.jl
Last synced: about 1 year ago
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ExPASy tool clone written on Julia
- Host: GitHub
- URL: https://github.com/zmactep/protparam.jl
- Owner: zmactep
- License: other
- Created: 2016-08-29T13:26:09.000Z (almost 10 years ago)
- Default Branch: master
- Last Pushed: 2022-09-02T07:01:14.000Z (almost 4 years ago)
- Last Synced: 2025-02-09T19:53:23.481Z (over 1 year ago)
- Language: Julia
- Size: 25.4 KB
- Stars: 2
- Watchers: 0
- Forks: 5
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE.md
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README
# ProtParam
## Installation
```
Pkg.clone("https://github.com/zmactep/ProtParam.jl.git")
```
## Usage
```
using ProtParam
rituximab = aa"QVQLQQPGAELVKPGASVKMSCKASGYTFTSYNMHWVKQTPGRGLEWIGAYPGNGDTSYNQKFKGKATLTADKSSSTAYMQLSSLTSEDSAVYYCARSTYYGGDWYFNVWAGTTVTVSA"
protparam(rituximab)
```
## Sample output
```
ProtParam
Query protein sequence:
QVQLQQPGAELVKPGASVKMSCKASGYTFTSYNMHWVKQTPGRGLEWIGAYPGNGDTSYN
QKFKGKATLTADKSSSTAYMQLSSLTSEDSAVYYCARSTYYGGDWYFNVWAGTTVTVSA
Theoretical pI: 8.86279296875
Molecular weight: 12984.442140000005
Number of amino acids in protein: 119
Number of atoms in protein: 1781
Total number of negatively charged residues (Asp + Glu): 7
Total number of positively charged residues (Arg + Lys): 10
Extinction coefficient, assuming all pairs of Cys residues form cystines:
E: 37025
Abs: 2.8514894672248112
Extinction coefficient, assuming all Cys residues are reduced:
E: 36900
Abs: 2.841862561528576
Half-life:
Estimated half-life in mammalian reticulocytes, in vitro: 0.8 hour
Estimated half-life in yeast, in vivo: 10 min
Estimated half-life in Escherichia coli, in vivo: >10 hour
The instability index (II): 32.99495798319327
This classifies the protein as stable.
Aliphatic index of a protein: 51.68067226890756
Grand Average of Hydropathy (GRAVY): -0.4537815126050419
Amino acids composition:
A 11
C 2
D 4
E 3
F 3
G 12
H 1
I 1
K 8
L 6
M 3
N 4
P 4
Q 7
R 2
T 12
S 14
V 8
W 4
Y 10
Atoms composition:
O 181
H 866
C 579
N 150
S 5
```