Read lpsagree.txt for details on registration.įor further information, see the PSAAM Manual. Read the Readme.txt file for installation details. All necessary files are contained in psaam.zip. The software package PSAAM is available for download as a ZIP file:ĭownload PSAAM here. The Profiles Window also contains a structural cartoon showing the current secondary structural model, and allows editing of the structural model.
Prediction profiles (Chou-Fasman indices Walsh-Crofts indices).Moment profiles at helical, sheet, or any other repeat (Hydrophobic Moment, or amphipathy plots Mutability (Conservation) Moment).Hydropathy profiles (many different indices built in).The program calculates and plots the following types of profile: This latter function can be used to make "helical cylinder models".Īnalysis of sequences is through generation of profiles. The main PSAAM program includes many useful features for analysis of structural information from sequence data, cartoons for graphical representation of secondary structures, prediction programs, and prediction aids, a ribosome function for generation of coordinates sets in PDB format (including Header information) for viewing by molecular graphics packages (examples, see also PDVWIN), and a SeqPlot function for plotting secondary structural models (helical cylinders and wheels, coils, etc., with each residue indicated by a circle, color-coded (or coded by line thickness) according to the current physico-chemical index. The package contains a main program (PSAAM), and several ancillary programs (INFORMAT, calculates mean sequence profiles and mutability moment (conservation moment) from aligned sequences FINDSEQ, will find sequence strings (structural motifs, binding domains, etc.) in a sequence file, or a directory of sequence files GENBANK, will extract sequence data from a file saved from Entrez).
We have developed a number of programs to aid in the Protein Sequence Analysis And Modelling ( PSAAM).
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