Pines Gur, Pines Assaf, Eckert Carrie A
Department of Entomology, Institute of Plant Protection, Agricultural Research Organization-The Volcani Center, Rishon, LeZion, Israel.
Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA.
Synth Biol (Oxf). 2022 Apr 28;7(1):ysac006. doi: 10.1093/synbio/ysac006. eCollection 2022.
Saturation mutagenesis is a semi-rational approach for protein engineering where sites are saturated either entirely or partially to include amino acids of interest. We previously reported on a codon compression algorithm, where a set of minimal degenerate codons are selected according to user-defined parameters such as the target organism, type of saturation and usage levels. Here, we communicate an addition to our web tool that considers the distance between the wild-type codon and the library, depending on its purpose. These forms of restricted collections further reduce library size, lowering downstream screening efforts or, in turn, allowing more comprehensive saturation of multiple sites. The library design tool can be accessed via http://www.dynamcc.com/dynamcc_d/. Graphical Abstract.
饱和诱变是一种蛋白质工程的半理性方法，其中位点被全部或部分饱和，以纳入感兴趣的氨基酸。我们之前报道了一种密码子压缩算法，根据用户定义的参数（如目标生物体、饱和类型和使用水平）选择一组最小简并密码子。在此，我们介绍了我们网络工具的一项新增功能，该功能根据其用途考虑野生型密码子与文库之间的距离。这些形式的受限文库进一步减小了文库大小，降低了下游筛选工作量，或者反过来，允许对多个位点进行更全面的饱和。可通过http://www.dynamcc.com/dynamcc_d/访问文库设计工具。图形摘要。
