The role of RNA secondary structure in the interaction between lncRNA and SAFB1

Abstract:

To explore the role of RNA secondary structure in the interaction between RNA and SAFB1 protein, structure analysis and RNA footprinting analysis were adopted. It revealed that SAFB1 binds to a specific region of LINC-PINT-1 and the SAFB1 binding region has a specific secondary structure. In addition, subcloning of LINC-PINT-1 confirmed that subclones contained the 30~55 nt region could maintain this secondary structure. Electrophoretic mobility shift assay（EMSA） found that this secondary structure was involved in the interaction between RNA and SAFB1. In this paper, software prediction and necessary experimental verification have indicated that the interaction between LINC-PINT-1 and SAFB1 depends on the specific RNA secondary structure, which provides a powerful theoretical experimental support for the study of the molecular mechanism of RNAprotein interaction.