Lorenzo Bongini et al 2007 Phys. Biol. 4 172 doi:10.1088/1478-3975/4/3/004
A dynamical study of antibody–antigen encounter reactions
Lorenzo Bongini1,6, Duccio Fanelli2,6, Francesco Piazza3,6, Paolo De Los Rios3, Michel Sanner4 and Ulf Skoglund5
Show affiliationsThe effects of internal dynamics in diffusion-driven encounters between macro-molecules represent a problem of broad relevance in molecular biology. In this view, we investigate a typical antigen–antibody reaction chain, based on a coarse-grained mechanical model parameterized directly upon results from single-molecule experiments. We demonstrate that the internal dynamics is a crucial factor in the encounter process. To describe our numerical results, we formulate a simple, intuitive theoretical framework, and we develop it analytically. This enables us to show that the inner dynamics of antibody molecules results in a cooperative behavior of their individual sub-units. Along the same lines, we also investigate the case of double binding to multi-valent antigens. Our results quantify the enhancement of avidity afforded by the double binding in excellent agreement with the available experimental data.
- PACS
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87.15.H- Dynamics of biomolecules
36.20.Hb Configuration (bonds, dimensions)
87.15.A- Theory, modeling, and computer simulation
87.15.B- Structure of biomolecules
- Subjects
- Dates
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Issue 3 (September 2007)
Received 3 July 2007, accepted for publication 29 August 2007
Published 2 October 2007
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A dynamical study of antibody–antigen encounter reactions
Lorenzo Bongini et al 2007 Phys. Biol. 4 172
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