ProtScale

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ProtScale

ProtScale allows you to compute and represent the profile produced by any amino acid scale on a selected protein.
An amino acid scale is defined by a numerical value assigned to each type of amino acid. The most frequently used scales are the hydrophobicity or hydrophilicity scales and the secondary structure conformational parameters scales, but many other scales exist which are based on different chemical and physical properties of the amino acids. This program provides 57 predefined scales entered from the literature.

Enter a sequence

Please enter one UniProtKB AC/ID (e.g. P05130 or KPC1_DROME).
Alternatively, enter one protein sequence in single letter code (e.g. ABCDEFGHIKLMNOPQRSTUVWXY).
Examples

Choose an amino acid scale

Please choose an amino acid scale from the following list. To display information about a scale (author, reference, amino acid scale values) you can click on its name.

Molecular weight	Number of codon(s)	Bulkiness	Polarity / Zimmerman
Polarity / Grantham	Refractivity	Recognition factors	Hphob. / Eisenberg et al.
Hphob. OMH / Sweet et al.	Hphob. / Hopp & Woods	Hydropath. / Kyte & Doolittle	Hphob. / Manavalan et al.
Hphob. / Abraham & Leo	Hphob. / Black	Hphob. / Bull & Breese	Hphob. / Fauchere et al.
Hphob. / Guy	Hphob. / Janin	Hphob. / Miyazawa et al.	Hphob. / Rao & Argos
Hphob. / Roseman	Hphob. / Tanford	Hphob. / Wolfenden et al.	Hphob. / Welling & al
Hphob. HPLC / Wilson & al	Hphob. HPLC / Parker & al	Hphob. HPLC pH3.4 / Cowan	Hphob. HPLC pH7.5 / Cowan
Hphob. / Rf mobility	HPLC / HFBA retention	HPLC / TFA retention	Transmembrane tendency
HPLC / retention pH 2.1	HPLC / retention pH 7.4	% buried residues	% accessible residues
Hphob. / Chothia	Hphob. / Rose & al	Ratio hetero end/side	Average area buried
Average flexibility	alpha-helix / Chou & Fasman	beta-sheet / Chou & Fasman	beta-turn / Chou & Fasman
alpha-helix / Deleage & Roux	beta-sheet / Deleage & Roux	beta-turn / Deleage & Roux	Coil / Deleage & Roux
alpha-helix / Levitt	beta-sheet / Levitt	beta-turn / Levitt	Total beta-strand
Antiparallel beta-strand	Parallel beta-strand	A.A. composition	A.A. comp. in Swiss-Prot
Relative mutability

Tune other parameters

Window size:
Relative weight of the window edges compared to the window center (in %):
Weight variation model (if the relative weight at the edges is < 100%): linear exponential
Do you want to normalize the scale from 0 to 1? yes no