Department of Biological Sciences, Virginia Tech, Latham Hall, 220 Ag Quad Lane, Blacksburg, Virginia, 24061, USA.
SRI International, Biosciences Division, Menlo Park, California, 92122, USA.
Protein Sci. 2023 May;32(5):e4634. doi: 10.1002/pro.4634.
Insects have evolved a chemical communication system using terpenoids, a structurally diverse class of specialized metabolites, previously thought to be exclusively produced by plants and microbes. Gene discovery, bioinformatics, and biochemical characterization of multiple insect terpene synthases (TPSs) revealed that isopentenyl diphosphate synthases (IDS), enzymes from primary isoprenoid metabolism, are their likely evolutionary progenitors. However, the mutations underlying the emergence of the TPS function remain a mystery. To address this gap, we present the first structural and mechanistic model for the evolutionary emergence of TPS function in insects. Through identifying key mechanistic differences between IDS and TPS enzymes, we hypothesize that the loss of isopentenyl diphosphate (IPP) binding motifs strongly correlates with the gain of the TPS function. Based on this premise, we have elaborated the first explicit structural definition of isopentenyl diphosphate-binding motifs (IBMs) and used the IBM definitions to examine previously characterized insect IDSs and TPSs and to predict the functions of as yet uncharacterized insect IDSs. Consistent with our hypothesis, we observed a clear pattern of disruptive substitutions to IBMs in characterized insect TPSs. In contrast, insect IDSs maintain essential consensus residues for binding IPP. Extending our analysis, we constructed the most comprehensive phylogeny of insect IDS sequences (430 full length sequences from eight insect orders) and used IBMs to predict the function of TPSs. Based on our analysis, we infer multiple, independent TPS emergence events across the class of insects, paving the way for future gene discovery efforts.
昆虫利用萜类化合物(一类结构多样的特殊代谢物)进化出了一种化学通讯系统,此前人们认为萜类化合物仅由植物和微生物产生。通过对多种昆虫萜烯合酶(TPS)的基因发现、生物信息学和生化特征分析,发现来自初级异戊烯代谢的异戊烯二磷酸合酶(IDS)可能是其进化祖先。然而,TPS 功能出现的潜在突变仍然是个谜。为了解决这一差距,我们提出了昆虫 TPS 功能进化出现的第一个结构和机制模型。通过鉴定 IDS 和 TPS 酶之间的关键机制差异,我们假设异戊烯二磷酸(IPP)结合基序的丧失与 TPS 功能的获得强烈相关。基于这一前提,我们详细阐述了 IPP 结合基序(IBM)的第一个明确结构定义,并使用 IBM 定义来研究先前表征的昆虫 IDS 和 TPS,并预测尚未表征的昆虫 IDS 的功能。与我们的假设一致,我们观察到在已鉴定的昆虫 TPS 中,IPP 结合基序(IBM)发生了明显的破坏性取代。相比之下,昆虫 IDS 保持了结合 IPP 的关键保守残基。通过扩展我们的分析,我们构建了昆虫 IDS 序列的最全面系统发育(来自 8 个昆虫目 430 个全长序列),并使用 IBM 来预测 TPS 的功能。基于我们的分析,我们推断出在昆虫类中存在多个独立的 TPS 出现事件,为未来的基因发现工作铺平了道路。