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Modeling and molecular dynamics of alpha-dystroglycan's C-terminus reveals the presence of an Ig-like domain encompassing its beta-dystroglycan binding epitope (Abstract/Poster in atti di convegno)
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- Modeling and molecular dynamics of alpha-dystroglycan's C-terminus reveals the presence of an Ig-like domain encompassing its beta-dystroglycan binding epitope (Abstract/Poster in atti di convegno) (literal)
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- 2010-01-01T00:00:00+01:00 (literal)
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Davide Pirolli; Francesca Sciandra; Manuela Bozzi; Bruno Giardina; Andrea Brancaccio; Maria Cristina De Rosa (2010)
Modeling and molecular dynamics of alpha-dystroglycan's C-terminus reveals the presence of an Ig-like domain encompassing its beta-dystroglycan binding epitope
in 35th Congress of the Federation-of-European-Biochemical-Societies, Gothenburg, Sweden, JUN 26-JUL 01, 2010
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- Davide Pirolli; Francesca Sciandra; Manuela Bozzi; Bruno Giardina; Andrea Brancaccio; Maria Cristina De Rosa (literal)
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- Istituto di Chimica del Riconoscimento Molecolare ICRM-UOS Roma, CNR; Istituto di Biochimica e Biochimica Clinica Università Cattolica del S. Cuore, Roma (literal)
- Titolo
- Modeling and molecular dynamics of alpha-dystroglycan's C-terminus reveals the presence of an Ig-like domain encompassing its beta-dystroglycan binding epitope (literal)
- Abstract
- Dystroglycan (DG) is a cell surface receptor which is composed of two subunits that interact noncovalently, namely alpha and beta
DG. Given its sarcolemmal localization at the interface between the cytoskeleton and the basal lamina, DG is thought to be
involved in the pathogenesis of several congenital muscular disorders [1]. To date only the 3D-structure of the N-terminal domain
of alpha DG has been solved by X-ray crystallography [2], and the structures of the other DG domains need still to be determined.
We generated a first theoretical 3D-model on a portion of the alpha DG's C-terminal domain. An initial model was established using
the I-TASSER algorithm which combines the methods of threading and ab initio modeling [3]. Subsequent refinement by molecular dynamics simulation led to an improved model structure which was analyzed by different protein analysis programs, including PROCHECK for the evaluation of Ramachandran plot quality, PROSA for testing interaction energies and VERIFY3D for identifying regions of improper folding. The resulting alpha DG's C-terminal domain (between residues 505-596) model is remarkably similar to the N-terminal domain (residues 60-158) solved at high resolution (PDB 1u2c), revealing the presence of another Ig-like domain within alpha DG. Such domain model includes the beta DG binding epitope of alpha DG and, confirming our previous experimental results, suggests that the epitope assumes a beta strand
conformation [4].
References:
1. Sciandra et al. Trends Biotechnol. 2007; 25:262-268.
2. Bozic et al. J. Biol. Chem. 2004; 279:44812-44816.
3. Zhang Proteins2007; 69:108-117.
4. Sciandra et al. FEBS J. 2009; 276:4933-4945 (literal)
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