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Showing 5 records out of 5 total

Categories: proteomics, (protein structure) - Software type(s): website - tool
Agadir predicts the helical behaviour of monomeric peptides. It only considers short range interactions. Conditions such as pH, temperature and ionic strength are used in the calculation. Modifications of the termini are also allowed. Keep in mind that Agadir is not a program to predict secondary structure of proteins.
keywords: alpha helix
Categories: proteomics, (post-translational modification) - Software type(s): website - tool
DAS (Dense Alignment Surface) is based on low-stringency dot-plots of the query sequence against a set of library sequences - non-homologous membrane proteins - using a previously derived, special scoring matrix. The method provides a high precision hyrdophobicity profile for the query from which the location of the potential transmembrane segments can be obtained. The novelty of the DAS-TMfilter algorithm is a second prediction cycle to predict TM segments in the sequences of the TM-library.
Categories: proteomics, (families, patterns and profiles) - Software type(s): website - tool
HeliQuest calculates from the amino acid sequence of a helix (??-helix, 3-10 helix, 3-11 helix or ?? helix) its physicochemical properties and amino acid composition and uses the results to screen any databank in order to identify protein segments possessing similar features.
Categories: proteomics, (post-translational modification) - Software type(s): website - tool
Prediction of transmembranes helices and topology of proteins.
Categories: proteomics, (protein characterisation and function, families, patterns and profiles, post-translational modification, protein-protein interaction) - Software type(s): website - tool
PredictProtein integrates feature prediction for secondary structure, solvent accessibility, transmembrane helices, globular regions, coiled-coil regions, structural switch regions, B-values, disorder regions, intra-residue contacts, protein-protein and protein-DNA binding sites, sub-cellular localization, domain boundaries, beta-barrels, cysteine bonds, metal binding sites and disulphide bridges.