SeqMS (download
size 2.6MB) is
a software aid to the sequencing of peptides by interpreting mass spectra. This
software was developed at the Center for Genetic Engineering and Biotechnology,
Havana, Cuba in collaboration with
the Institute for Protein Research, Osaka University, Osaka, Japan.
Features version 3.0
Analysis of high-energy CID and post-source decay spectra
High-speed calculation
Backbone and side-chain fragmented ion series; immonium,
side chain lost and internal fragment ions are considered
Analysis of unknown sequence and N- or C- terminal blocking
groups
18O-labelling at carboxyl termini can be considered for
reliability of assignments
Graphical user interface for processing raw spectra data,
multiple thresholds for automatic peak detection
Display of the assignments of ions in the spectrum or in
tabular form
Histograms (hits/position or score/position) are available
Running on Windows 95/NT
Automatic calculation combined with Interactive sequencing
Edition of the results and re-processing
Consider partial sequences
Consideration of amino acid usage
Sequence verification (one and three letter code)
Improved scoring methods
Requirements
Personal computer 486/100 or better
32 Mb RAM
5 Mb HD (main program (.EXE), DLLs, Libraries and samples)
Windows 95/NT
Service
Download of a demo-SeqMS.
Click "download".--> The file "SEQMS.zip" will be downloaded in your PC
(WINDOWS95 or NT).
Get all the files required for the installation by melting the above file
by "WINZIP".Setup the program via "setup.exe". (The demo-SeqMS only allows the
retrieval of the demo-data attached for demonstration at present.)
For analysis on your own data, please write to: Jorge.Cossio@cigb.edu.cu
or tak@protein.osaka-u.ac.jp. A commercial version of SeqMS is currently
available from JEOL Ltd. (Tokyo, Japan) and Heber Biotech, S.A. (Havana, Cuba)
under the name MSEQ.
We are also supporting those who want to use the software for their data
analysis via the following procedures:
Download the demo-version of SeqMS from http://www.protein.osaka-u.ac.jp/organic.
Examine and evaluate SeqMS with the demo data (two spectra).
If you want to use it for the analysis of your own data, send them to me
as XY-plots format (ascii) by e-mail or FTP (IP address: 133.1.169.109; user
name: tak).
The data will be readily transformed to those readable with your downloaded
software in our site, and then, sent back to you.
Fernandez-de-Cossio, J., Gonzales, J. and Besada, V. (1995). CABIOS. Vol.
11 no. 4. "A Computer Program to Aid the Sequencing of Peptides in Collision
Activated Decomposition Experiments."
Fernandez-de-Cossio, J., Gonzalez, J., Takao, T., Shimonishi, Y., Padron,
G. and Besada, V. 45th ASMS Conference on Mass
Spectrometry and Allied Topics. "Software for rapid analysis of unknown
peptide sequences involving gaps and post-translational modifications by MS.
Takao, T., Fernandez-de-Cossio, J., Gonzalez, J., Shimonishi, Y., Padron,
G. and Besada, V. 45th ASMS Conference on Mass
Spectrometry and Allied Topics. "Automated interpretation of high-energy
CID spectra of peptides by SeqMS, a software aid for sequencing by MS/MS"
Fernandez-de-Cossio, J., Gonzalez, L. J., Besada, V., Padron, G., Takao,
T., Shimonishi, Y. Proceedings of the 6th International Congress Biotecnology
Habana´97. Habana, Cuba. (1997) "Interactive Peptide Sequencing and Automatic
Interpretation by Mass Spectrometry."
F.-Cossio, J., Gonzalez, J., Betancourt, L., Besada, V., Padron, G.,
Shimonishi, Y., & Takao, T. "Automated Interpretation of High-Energy
Collision-Induced Dissociation Spectra of Singly-Protonated Peptides by "SeqMS",
a Software Aid for De Novo Sequencing by MS/MS" Rapid Commun. Mass Spectrom.
12, 1867-1878 (1998).
