Epitope-Sequences and Related Immuoglobulin Variable Regions

Kevin Karplus karplus at bray.cse.ucsc.edu
Mon Jun 2 11:34:40 EST 2003


In article <pgpmoose.200306021005.5415 at net.bio.net>, 
Ernst-Ludwig Brust wrote: 
> is there any Infoserver in www, where one can get
> Antigen Epitope AminoAcid-Sequences, the related
> Sequences of the variable Regions of the light and
> heavy Immunoglobulin-Chain and the RNA-Sequences of
> the two last.

You might try
http://www.ebi.ac.uk/imgt/
or other databases pointed to by 
http://bioresearch.ac.uk/browse/mesh/detail/C0021027L0021027.html

The IMGT database does appear to have information about the
specificity of at least some of the immunoglobulins.
I'm not an immunoglobulin specialist, so I don't know whether the
information you are looking for is part of the standard annotation.

I think there may be some difficulty in providing epitope amino-acid
sequences, as the eptiope of an immunoglobulin is a 3D object, and may
contain amino acids that are close in 3-space but widely separated on
the backbone of the antigen. (That is, not all eptiopes can be
conveniently expressed as peptide sequences.)

-- 
Kevin Karplus 	karplus at soe.ucsc.edu	http://www.soe.ucsc.edu/~karplus
Professor of Computer Engineering, University of California, Santa Cruz
Undergraduate and Graduate Director, Bioinformatics
Affiliations for identification only.




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