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Proc Natl Acad Sci U S A. 2013 Apr 23;110(17):E1555-64. doi: 10.1073/pnas.1303645110. Epub 2013 Apr 8.

Redesign of a cross-reactive antibody to dengue virus with broad-spectrum activity and increased in vivo potency.

Author information

1
Department of Biological Engineering, Infectious Diseases Interdisciplinary Research Group, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

Abstract

Affinity improvement of proteins, including antibodies, by computational chemistry broadly relies on physics-based energy functions coupled with refinement. However, achieving significant enhancement of binding affinity (>10-fold) remains a challenging exercise, particularly for cross-reactive antibodies. We describe here an empirical approach that captures key physicochemical features common to antigen-antibody interfaces to predict protein-protein interaction and mutations that confer increased affinity. We apply this approach to the design of affinity-enhancing mutations in 4E11, a potent cross-reactive neutralizing antibody to dengue virus (DV), without a crystal structure. Combination of predicted mutations led to a 450-fold improvement in affinity to serotype 4 of DV while preserving, or modestly increasing, affinity to serotypes 1-3 of DV. We show that increased affinity resulted in strong in vitro neutralizing activity to all four serotypes, and that the redesigned antibody has potent antiviral activity in a mouse model of DV challenge. Our findings demonstrate an empirical computational chemistry approach for improving protein-protein docking and engineering antibody affinity, which will help accelerate the development of clinically relevant antibodies.

PMID:
23569282
PMCID:
PMC3637786
DOI:
10.1073/pnas.1303645110
[Indexed for MEDLINE]
Free PMC Article
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