Structural basis for activity switching in polymerases determining the fate of let-7 pre-miRNAs

• Published in: Nature structural & molecular biology Vol. 31; no. 9; pp. 1426 - 1438
• Main Authors: Yi, Gangshun, Ye, Mingda, Carrique, Loic, El-Sagheer, Afaf, Brown, Tom, Norbury, Chris J., Zhang, Peijun, Gilbert, Robert J. C.
• Format: Journal Article
• Language: English
• Published: New York Nature Publishing Group US 01.09.2024; Nature Publishing Group
• Subjects: 631/337/505; 631/535/1258/1259; 631/80; Biochemistry; Biological Microscopy; Biomedical and Life Sciences; Cell fate; Clamps; Cryoelectron Microscopy; Cryoforming; DNA-Binding Proteins - chemistry; DNA-Binding Proteins - metabolism; Electron microscopy; Gene expression; Humans; Life Sciences; Membrane Biology; MicroRNAs; MicroRNAs - chemistry; MicroRNAs - genetics; MicroRNAs - metabolism; miRNA; Mode of action; Models, Molecular; Nucleotides; Nucleotidyltransferases - chemistry; Nucleotidyltransferases - metabolism; Pluripotency; Protein Conformation; Protein Structure; Ribonucleic acid; RNA; RNA Nucleotidyltransferases - chemistry; RNA Nucleotidyltransferases - genetics; RNA Nucleotidyltransferases - metabolism; RNA Precursors - metabolism; RNA-Binding Proteins - chemistry; RNA-Binding Proteins - metabolism; Uridine
• ISSN: 1545-9993; 1545-9985; 1545-9985
• DOI: 10.1038/s41594-024-01357-9

Tumor-suppressor let-7 pre-microRNAs (miRNAs) are regulated by terminal uridylyltransferases TUT7 and TUT4 that either promote let-7 maturation by adding a single uridine nucleotide to the pre-miRNA 3′ end or mark them for degradation by the addition of multiple uridines. Oligo-uridylation is increased in cells by enhanced TUT7/4 expression and especially by the RNA-binding pluripotency factor LIN28A. Using cryogenic electron microscopy, we captured high-resolution structures of active forms of TUT7 alone, of TUT7 plus pre-miRNA and of both TUT7 and TUT4 bound with pre-miRNA and LIN28A. Our structures reveal that pre-miRNAs engage the enzymes in fundamentally different ways depending on the presence of LIN28A, which clamps them onto the TUTs to enable processive 3′ oligo-uridylation. This study reveals the molecular basis for mono- versus oligo-uridylation by TUT7/4, as determined by the presence of LIN28A, and thus their mechanism of action in the regulation of cell fate and in cancer. Here, the authors show that cytoplasmic uridylyltransferases TUT7 and TUT4 bind let-7 pre-miRNA by alternative means in the absence and presence of Lin28A, which directly interacts with both RNA and enzyme to convert from a distributive to a processive mode of action.