Alexandre G. de Brevern's publications

Year 2013

  1. Mahajan, S., Iftekar M., Agarwal G., Offmann B., de Brevern A.G., N. Srinivasan#
    DoSA: Database of Structural Alignments
    Database (2013) 2013:48.

    Protein structure alignment is a crucial step in protein structure–function analysis. Despite the advances in protein structure alignment algorithms, some of the local conformationally similar regions are mislabeled as structurally variable regions (SVRs). These regions are not well superimposed because of differences in their spatial orientations. The Database of Structural Alignments (DoSA) addresses this gap in identification of local structural similarities obscured in global protein structural alignments by realigning SVRs using an algorithm based on protein blocks. A set of protein blocks is a structural alphabet that abstracts protein structures into 16 unique local structural motifs. DoSA provides unique information about 159 780 conformationally similar and 56 140 conformationally dissimilar SVRs in 74 705 pairwise structural alignments of homologous proteins. The information provided on conformationally similar and dissimilar SVRs can be helpful to model loop regions. It is also conceivable that conformationally similar SVRs with conserved residues could potentially contribute toward functional integrity of homologues, and hence identifying such SVRs could be helpful in understanding the structural basis of protein function. Database URL:
    paper paper .

    collaboration with Pr. N. Srinivasan of Molecular Biophysics Unit (IISc, India) and Pr. B. Offmann of University of Nantes (France).

    • Indo-French collaborative grant (CEFIPRA/IFCPAR 3903-E) [link to the project]
    • The Ministry of Research (France)
    • The University Paris Diderot, Sorbonne Paris Cite (France)
    • The National Institute of Blood Transfusion (INTS, France)
    • The National Institute of Health and Medical Research (INSERM, France)
    • The Laboratories of Excellence, GR-Ex (France)
    • The University of Nantes (France)
    • Fonds Européen de Dévelopment Régional and Conseil Regional de La Réunion [20100079, Tiers: 144645]
    • Department of Biotechnology (India)

Alexandre G. de Brevern
Last Modification : January 2014
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