UCSF MSFit running in Australia.
FindMod EXPASY tool for predicting post-translational modifications of proteins.
PeptIdentEXPASY Peptide Identification using pI, MW and Mass fingerprint data.
MultIdentEXPASY Peptide Identification using pI, amino acid composition, MW and Mass fingerprint data.
ProFound Bayesian Mass Search at Rockefeller University.
Mass Spectometry at MUSC
A local MUSC implemenation of the the MASCOT program.
Coming soon from the Bioinformatics and MassSpectrometry Groups at MUSC a cool Web-based mass spectrometry search tool.
There is a nice program also called PeptideSearch installed on the BCRG3. The program is set up to be shared by other MAC users via remote access as user "guest". The MAC G3 has the IP number 128.23.109.123. Alternatively it may be linked via either of the domain names macbcr.library.musc.edu or macbcr.library.
Within the EMBOSS programs (command line or W2H access) is a program called EMOWSE. EMOWSE takes a file of masses and matches to an indicated database. You may direct the program to search the human, mouse or rat IPI protein databases by entering
The native ( not the GCG versions) versions of the FASTA programs may be run by setting the following variable in the ".cshrc" file.
setenv FASTLIBS /usr/common/bcr/fastgbs
The MASS spectral searcher FASTS program (formally fasts34 at the command line) requires a special input file a bit like a fasta format file. Here's the basic example (its a random thing to show the input file format, not like the FASTA web site real example).
>filename MPIG, MGTHRY, MKHYTEDFS, MKHYT
The order is not important but the files must be separated by commas as shown. The last entry has no following comma.
The BCR at the Medical University of South Carolina
URL: http://bcr.musc.edu/
Last Modified : 10:35 EDT July 20, 2004 - ESH