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GPMAW - General Protein/Mass Analysis for Windows
The GPMAW program is primarily intended as a tool for mass spectrometric analysis of proteins and peptides. However, a number of other bioinformatics tools have been included, so the use of the program extends far beyond simple mass analysis.
Program content:
Sequence handling: Import of sequences from a number of different formats with direct database search in Entrez and in local databases (FastA format and Swiss-Prot). Sequences can be saved in local files (databases) for future reference.
From the sequence window a large number of actions can be performed. Sequences can be exported in FastA format (either singly or all sequences at once) for easy transfer to other programs.
Mass analysis: The protein can be cleaved by automatic methods (e.g. a flexible nomenclature for defining enzyme actions) or manually. The peptides are displayed with a number of parameters (various mass values - mono, ave, charges - Bull&Breese index, HPLC index, pI, charge) and can be further worked upon (e.g. cross-linked, new cleavage).
Peptide mass searches can be performed on any local database in FastA format.
Bioinformatics: A number of graphs can be displayed, hydrophobicity, dot-plot, secondary structure prediction. BLAST searches can be performed on local databases. Multiple alignment using ClustalW.
In order to use ClustalW you need to download and install the executable, check here how to download and install.
For more details please see the following:
Sequence window
Peptide window
User defined pI values.
You have identified a protein using peptide mass fingerprinting - how can you use GPMAW to extend these findings?
Cross-linking with transglutaminase.
Databases. GPMAW is able to take advantage of the large databases that are available on the Internet. Read how to use and download them here.
Documentation for GPMAW is presented in the HELP section, the manual is available online Here.
Pricing and ordering information can be found in the Price info section.
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