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EMBOSS: iep |
The application can make a plot of the ionization curve with respect to pH and can write an output file of the data.
% iep sw:laci_ecoli Output file [laci_ecoli.iep]:
Mandatory qualifiers (* if not always prompted): [-sequencea] seqall Sequence database USA * -graph xygraph Graph type * -outfile outfile Output file name Optional qualifiers: (none) Advanced qualifiers: -plot bool Plot charge vs pH -[no]report bool Write results to a file -step float pH step value -amino integer Number of N-termini -[no]termini bool Include charge at N and C terminus |
Mandatory qualifiers | Allowed values | Default | |
---|---|---|---|
[-sequencea] (Parameter 1) |
Sequence database USA | Readable sequence(s) | Required |
-graph | Graph type | EMBOSS has a list of known devices, including postscript, ps, hpgl, hp7470, hp7580, meta, colourps, cps, xwindows, x11, tektronics, tekt, tek4107t, tek, none, null, text, data, xterm | EMBOSS_GRAPHICS value, or x11 |
-outfile | Output file name | Output file | <sequence>.iep |
Optional qualifiers | Allowed values | Default | |
(none) | |||
Advanced qualifiers | Allowed values | Default | |
-plot | Plot charge vs pH | Yes/No | No |
-[no]report | Write results to a file | Yes/No | Yes |
-step | pH step value | Number from 0.010 to 1.000 | .5 |
-amino | Number of N-termini | Any integer value | 1 |
-[no]termini | Include charge at N and C terminus | Yes/No | Yes |
IEP of LACI_ECOLI from 1 to 360 Isoelectric Point = 6.8820 pH Bound Charge 1.00 81.96 37.96 1.50 81.89 37.89 2.00 81.65 37.65 2.50 80.91 36.91 3.00 78.79 34.79 3.50 73.70 29.70 4.00 65.15 21.15 4.50 56.73 12.73 5.00 51.75 7.75 5.50 49.36 5.36 6.00 47.63 3.63 6.50 45.56 1.56 7.00 43.59 -0.41 7.50 42.27 -1.73 8.00 41.22 -2.78 8.50 39.87 -4.13 9.00 38.26 -5.74 9.50 36.24 -7.76 10.00 33.03 -10.97 10.50 28.46 -15.54 11.00 23.58 -20.42 11.50 19.41 -24.59 12.00 15.19 -28.81 12.50 9.75 -34.25 13.00 4.64 -39.36 13.50 1.75 -42.25 14.00 0.59 -43.41
Program name | Description |
---|---|
checktrans | Reports STOP codons and ORF statistics of a protein sequence |
digest | Protein proteolytic enzyme or reagent cleavage digest |
octanol | Displays protein hydropathy |
pepinfo | Plots simple amino acid properties in parallel |
pepnet | Displays proteins as a helical net |
pepstats | Protein statistics |
pepwheel | Shows protein sequences as helices |
pepwindow | Displays protein hydropathy |
pepwindowall | Displays protein hydropathy of a set of sequences |