PuSH - Publication Server of Helmholtz Zentrum München

Herrmann, G. ; Schön, A. ; Brack-Werner, R. ; Werner, T.

CONRAD: A method for identification of variable and conserved regions within proteins by scale-space filtering.

Bioinformatics 12, 197-203 (1996)
DOI
Open Access Green as soon as Postprint is submitted to ZB.
Advanced sequencing techniques allow rapid deduction of individual amino acid sequences of highly related proteins. Due to their quasi-species nature, viral genomes (e.g. HIV-1) represent one of the most common sources of related proteins. Another example of related proteins are immunoglobulins. Local differences in amino acid conservation are useful indicators of potential domain structures and immunological or functional epitopes prior to structural analysis of proteins. Although variability indices can be calculated by several methods, delineation of boundaries between sequence stretches with similar variability indices is left to the user. We use algorithmic scale-space filtering for delineation of conserved and variable sequence stretches within a protein which is performed on an algorithmic basis avoiding arbitrary assignments. Our method correctly identified variable regions for the human immunoglobulin λ-chain V-regions (subgroup I). Prediction of the variable regions of the HIV-1 gp120 env protein was in agreement with empirical derived definitions. These examples indicate that our method is useful for the regional assignment of protein variability solely on the basis of amino acid sequences.
Altmetric
Additional Metrics?
[➜Log in]
Edit extra informations Login
Publication type Article: Journal article
Document type Scientific Article
Corresponding Author
ISSN (print) / ISBN 1367-4803
e-ISSN 1367-4811
Journal Bioinformatics
Quellenangaben Volume: 12, Issue: 3, Pages: 197-203 Article Number: , Supplement: ,
Publisher Oxford University Press
Publishing Place Oxford
Non-patent literature Publications
Reviewing status Peer reviewed
Institute(s) Department for Medical Information Systems (MEDIS)
Institute of Virology (VIRO)
Institut für Säugetiergenetik