Kadamuri Rajasekhar Varma, Irukuvajjula Shivkumar Sharma, Vadrevu Ramakrishna
Department of Biological Sciences, Birla Institute of Technology and Science-Pilani, Hyderabad, Telangana, India.
Methods Mol Biol. 2019;1958:221-236. doi: 10.1007/978-1-4939-9161-7_11.
βαβ super-secondary structures constitute the basic building blocks of (β/α) class of proteins. Despite the success in designing super-secondary structures, till date, there is not a single example of a natural βαβ sequence known to fold in isolation. In this chapter, to address the finding the "needles" in the haystack scenario, we have combined the sequence preferences and structural features of independent βαβ motifs, dictated by natural selection, with rationally derived parameters from a designed βαβ motif adopting stable fold in solution. Guided by this approach, a set of potential βαβ sequences from (β/α)/TIM barrels are proposed as likely candidates for autonomously folding based on the assessment of their foldability.
βαβ超二级结构构成了(β/α)类蛋白质的基本构建单元。尽管在设计超二级结构方面取得了成功，但迄今为止，尚无已知能单独折叠的天然βαβ序列的实例。在本章中，为了解决大海捞针般的发现难题，我们将自然选择所决定的独立βαβ基序的序列偏好和结构特征，与从在溶液中采用稳定折叠的设计βαβ基序合理推导的参数相结合。在这种方法的指导下，基于对其可折叠性的评估，提出了一组来自(β/α)/TIM桶的潜在βαβ序列，作为可能自主折叠的候选序列。
