Vivcharuk Victor, Baardsnes Jason, Deprez Christophe, Sulea Traian, Jaramillo Maria, Corbeil Christopher R, Mullick Alaka, Magoon Joanne, Marcil Anne, Durocher Yves, O'Connor-McCourt Maureen D, Purisima Enrico O
Human Health Therapeutics, National Research Council Canada, Montreal, QC, Canada.
PLoS One. 2017 Jul 27;12(7):e0181490. doi: 10.1371/journal.pone.0181490. eCollection 2017.
Effective biologic therapeutics require binding affinities that are fine-tuned to their disease-related molecular target. The ADAPT (Assisted Design of Antibody and Protein Therapeutics) platform aids in the selection of mutants that improve/modulate the affinity of antibodies and other biologics. It uses a consensus z-score from three scoring functions and interleaves computational predictions with experimental validation, significantly enhancing the robustness of the design and selection of mutants. The platform was tested on three antibody Fab-antigen systems that spanned a wide range of initial binding affinities: bH1-VEGF-A (44 nM), bH1-HER2 (3.6 nM) and Herceptin-HER2 (0.058 nM). Novel triple mutants were obtained that exhibited 104-, 46- and 32-fold improvements in binding affinity for each system, respectively. Moreover, for all three antibody-antigen systems over 90% of all the intermediate single and double mutants that were designed and tested showed higher affinities than the parent sequence. The contributions of the individual mutants to the change in binding affinity appear to be roughly additive when combined to form double and triple mutants. The new interactions introduced by the affinity-enhancing mutants included long-range electrostatics as well as short-range nonpolar interactions. This diversity in the types of new interactions formed by the mutants was reflected in SPR kinetics that showed that the enhancements in affinities arose from increasing on-rates, decreasing off-rates or a combination of the two effects, depending on the mutation. ADAPT is a very focused search of sequence space and required only 20-30 mutants for each system to be made and tested to achieve the affinity enhancements mentioned above.
有效的生物疗法需要与疾病相关分子靶点精确匹配的结合亲和力。ADAPT(抗体和蛋白质疗法辅助设计)平台有助于选择能够提高/调节抗体及其他生物制剂亲和力的突变体。它利用来自三种评分函数的共识z分数,并将计算预测与实验验证交错进行,显著增强了突变体设计和选择的稳健性。该平台在三个抗体Fab-抗原系统上进行了测试,这些系统涵盖了广泛的初始结合亲和力范围:bH1-VEGF-A(44 nM)、bH1-HER2(3.6 nM)和赫赛汀-HER2(0.058 nM)。分别获得了对每个系统结合亲和力提高104倍、46倍和32倍的新型三重突变体。此外,对于所有三个抗体-抗原系统,在设计和测试的所有中间单突变体和双突变体中,超过90%的突变体显示出比亲本序列更高的亲和力。当组合形成双突变体和三突变体时,各个突变体对结合亲和力变化的贡献似乎大致是累加的。亲和力增强突变体引入的新相互作用包括长程静电作用以及短程非极性相互作用。突变体形成的新相互作用类型的这种多样性反映在表面等离子体共振动力学中,结果表明亲和力的增强源于结合速率的增加、解离速率的降低或两种效应的组合,这取决于突变情况。ADAPT是对序列空间的一种非常有针对性的搜索,每个系统仅需制备和测试20-30个突变体就能实现上述亲和力增强。
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