NameLinkDescription
Aggrescan3D  http://biocomp.chem.uw.edu.pl/A3D2/Program for prediction of protein solubility and aggregation propensity. Accepts also polypeptide structures.
BioTrianglehttp://biotriangle.scbdd.com/  Program for prediction of peptide physico-chemical features. Provides options accepting amino acid sequences (BioProt) or SMILES codes (BioChem) as a queries
COPidhttp://www.imtech.res.in/raghava/copid/Program designed for comparison of protein amino acid and dipeptide composition as well as content of amino acid residues with different physico-chemical properties. Accepts peptide sequences as a queries
CycloPshttp://bioware.ucd.ie/~cyclops/cgi-bin/webpep.cgi  Program supporting design of cyclic peptides. Program translates amino acid sequences into SMILES code and predicts some molecular features and physico-chemical properties.
GRAVY Calculatorhttp://www.gravy-calculator.de/Program calculating GRAVY – grand average hydropathy
HSA/HSSftp://ftp.landfood.ubc.ca/foodsci/HSA
HSS software is selected by clicking on “go to homo ver” option (see the user instruction available on the website)		HSA – homology similarity analysis computes pattern similarity constants and average side chain property index values of segments in sequences;
HSS – homology similarity search, a step-wise program initiated from N-terminus of query sequences by shifting the reference segment towards C-terminus. Software based on similarity of segments in terms of similarity constant and average property values compared to template sequences
iAMY-SCMhttp://camt.pythonanywhere.com/iAMY-SCMProgram predicting amyloid propensity of proteins. Accepts peptide sequences as a query
INTAAhttp://bioinfo.uochb.cas.cz/INTAA/Program calculating energy of interactions between amino acid residues in proteins and polypeptides and energy of interactions between proteins and DNA.
IRC-Fusehttp://kurata14.bio.kyutech.ac.jp/IRC-Fuse/Program predicting redox sensitivity of cysteine residues
Isoelectric Point Calculator 2.0http://ipc2-isoelectric-point.org/Program designed for calculation of isoelectric points of proteins and peptides
PepDrawhttp://www.tulane.edu/~biochem/WW/PepDraw/Program for display peptide structure and calculation of physico-chemical properties
Peptide Property Calculatorhttp://www.innovagen.se/custom-peptide-synthesis/peptide-property-calculator/peptide-property-calculator.aspProgram calculating molecular weight, charge at pH 7, average hydrophilicity and ratio of hydrophilic amino acid residues
pI/MWhttp://www.expasy.org/tools/pi_tool.htmlProgram calculating peptide isoelectric points and molecular masses on the basis of amino acid sequences
PPCpredhttp://biomine.ece.ualberta.ca/PPCpred/Program for protein purification and crystallization propensity prediction. Accepts peptide sequences as the queries.
PROFEAThttp://jing.cz3.nus.edu.sg/cgi-bin/prof/prof.cgiProgram for prediction structural and physicochemical features of proteins and peptides
Proteome-pIhttp://isoelectricpointdb.org/Database of predicted isoelectric points of proteins
Protein-Solhttps://protein-sol.manchester.ac.uk/Program for protein solubility prediction. Accepts peptides containing at least 21 amino acd residues
ProtParamhttp://www.expasy.org/tools/protparam.htmlProgram for computing physicochemical features such as molecular mass, isoelectric point, amino acid composition, absorbance coefficient at 280 nm, predicted half-life in vivo, instability index, aliphatic index and average hydropathy
PseAAChttp://chou.med.harvard.edu/bioinf/PseAA/Program generating so called pseudo amino acid composition of proteins and peptides.
Pse-in-Onehttp://bioinformatics.hitsz.edu.cn/Pse-in-One/home/Program generating vectors reflecting peptide or protein features utilizing pseudo amino acid composition
Pse-in-One 2.0http://bioinformatics.hitsz.edu.cn/Pse-in-One2.0/Program generating vectors reflecting peptide or protein features utilizing pseudo amino acid composition
PseKRAAChttp://bigdata.imu.edu.cn/psekraacProgram generating so called pseudo amino acid composition of proteins and peptides.
SCRATCHhttp://www.igb.uci.edu/servers/psss.htmlProgram containing protein and peptide solubility.
SODAhttp://protein.bio.unipd.it/soda/Program predicting protein solubility. Accepts peptide sequences as queries.