Taylor Noah D, Garruss Alexander S, Moretti Rocco, Chan Sum, Arbing Mark A, Cascio Duilio, Rogers Jameson K, Isaacs Farren J, Kosuri Sriram, Baker David, Fields Stanley, Church George M, Raman Srivatsan
Wyss Institute for Biologically-Inspired Engineering, Harvard University, Boston, Massachusetts, USA.
Department of Genetics, Harvard Medical School, Boston, Massachusetts, USA.
Nat Methods. 2016 Feb;13(2):177-83. doi: 10.1038/nmeth.3696. Epub 2015 Dec 21.
Genetic regulatory proteins inducible by small molecules are useful synthetic biology tools as sensors and switches. Bacterial allosteric transcription factors (aTFs) are a major class of regulatory proteins, but few aTFs have been redesigned to respond to new effectors beyond natural aTF-inducer pairs. Altering inducer specificity in these proteins is difficult because substitutions that affect inducer binding may also disrupt allostery. We engineered an aTF, the Escherichia coli lac repressor, LacI, to respond to one of four new inducer molecules: fucose, gentiobiose, lactitol and sucralose. Using computational protein design, single-residue saturation mutagenesis or random mutagenesis, along with multiplex assembly, we identified new variants comparable in specificity and induction to wild-type LacI with its inducer, isopropyl β-D-1-thiogalactopyranoside (IPTG). The ability to create designer aTFs will enable applications including dynamic control of cell metabolism, cell biology and synthetic gene circuits.
可被小分子诱导的遗传调控蛋白作为传感器和开关是有用的合成生物学工具。细菌变构转录因子(aTFs)是一类主要的调控蛋白,但很少有aTFs被重新设计以响应天然aTF-诱导剂对之外的新效应物。改变这些蛋白质中的诱导剂特异性很困难,因为影响诱导剂结合的取代也可能破坏变构作用。我们对一种aTF,即大肠杆菌乳糖阻遏蛋白LacI进行了工程改造,使其对四种新诱导剂分子之一作出反应:岩藻糖、龙胆二糖、乳糖醇和三氯蔗糖。通过计算蛋白质设计、单残基饱和诱变或随机诱变,以及多重组装,我们鉴定出了特异性和诱导能力与野生型LacI及其诱导剂异丙基β-D-1-硫代半乳糖苷(IPTG)相当的新变体。创建定制aTFs的能力将使包括细胞代谢、细胞生物学和合成基因回路的动态控制在内的应用成为可能。