Center for Structural Biology, VIBVIB-VUB, Brussels, Belgium.
Structural Biology Brussels, Vrije Universiteit Brussel, Brussels, Belgium.
RNA Biol. 2022;19(1):622-635. doi: 10.1080/15476286.2022.2066336. Epub 2021 Dec 31.
Heterogeneous nuclear ribonucleoproteins (hnRNP) function in RNA processing, have RNA-recognition motifs (RRMs) and intrinsically disordered, low-complexity domains (LCDs). While RRMs are drivers of RNA binding, there is only limited knowledge about the RNA interaction by the LCD of some hnRNPs. Here, we show that the LCD of hnRNPA2 interacts with RNA via an embedded Tyr/Gly-rich region which is a disordered RNA-binding motif. RNA binding is maintained upon mutating tyrosine residues to phenylalanines, but abrogated by mutating to alanines, thus we term the RNA-binding region 'F/YGG motif'. The F/YGG motif can bind a broad range of structured (e.g. tRNA) and disordered (e.g. polyA) RNAs, but not rRNA. As the F/YGG otif can also interact with DNA, we consider it a general nucleic acid-binding motif. hnRNPA2 LCD can form dense droplets, by liquid-liquid phase separation (LLPS). Their formation is inhibited by RNA binding, which is mitigated by salt and 1,6-hexanediol, suggesting that both electrostatic and hydrophobic interactions feature in the F/YGG motif. The D290V mutant also binds RNA, which interferes with both LLPS and aggregation thereof. We found homologous regions in a broad range of RNA- and DNA-binding proteins in the human proteome, suggesting that the F/YGG motif is a general nucleic acid-interaction motif.
异质核核糖核蛋白 (hnRNP) 在 RNA 处理中发挥作用,具有 RNA 识别基序 (RRMs) 和固有无序、低复杂度结构域 (LCDs)。虽然 RRMs 是 RNA 结合的驱动因素,但对于某些 hnRNPs 的 LCD 与 RNA 的相互作用,我们的了解还很有限。在这里,我们表明 hnRNPA2 的 LCD 通过一个嵌入式 Tyr/Gly 丰富区域与 RNA 相互作用,该区域是一个无序的 RNA 结合基序。RNA 结合在将酪氨酸残基突变为苯丙氨酸时得以维持,但突变为丙氨酸时则被阻断,因此我们将 RNA 结合区域称为“F/YGG 基序”。F/YGG 基序可以结合广泛的结构 (如 tRNA) 和无序 (如 polyA) RNA,但不能结合 rRNA。由于 F/YGG 基序也可以与 DNA 相互作用,我们认为它是一个通用的核酸结合基序。hnRNPA2 LCD 可以通过液-液相分离 (LLPS) 形成密集的液滴。RNA 结合会抑制其形成,而盐和 1,6-己二醇则可以减轻这种抑制作用,这表明 F/YGG 基序既存在静电相互作用,也存在疏水相互作用。D290V 突变体也可以结合 RNA,这会干扰 LLPS 及其聚集。我们在人类蛋白质组中发现了广泛的 RNA 和 DNA 结合蛋白中的同源区域,这表明 F/YGG 基序是一个通用的核酸相互作用基序。