Structural highlights
Function
SDN1_ARATH 3'-5' exonuclease degrading single-stranded small RNAs.[1]
Publication Abstract from PubMed
A family of DEDDh 3'-->5' exonucleases known as Small RNA Degrading Nucleases (SDNs) initiates the turnover of ARGONAUTE1 (AGO1)-bound microRNAs in Arabidopsis by trimming their 3' ends. Here, we report the crystal structure of Arabidopsis SDN1 (residues 2-300) in complex with a 9 nucleotide single-stranded RNA substrate, revealing that the DEDDh domain forms rigid interactions with the N-terminal domain and binds 4 nucleotides from the 3' end of the RNA via its catalytic pocket. Structural and biochemical results suggest that the SDN1 C-terminal domain adopts an RNA Recognition Motif (RRM) fold and is critical for substrate binding and enzymatic processivity of SDN1. In addition, SDN1 interacts with the AGO1 PAZ domain in an RNA-independent manner in vitro, enabling it to act on AGO1-bound microRNAs. These extensive structural and biochemical studies may shed light on a common 3' end trimming mechanism for 3'-->5' exonucleases in the metabolism of small non-coding RNAs.
Structural and biochemical insights into small RNA 3' end trimming by Arabidopsis SDN1.,Chen J, Liu L, You C, Gu J, Ruan W, Zhang L, Gan J, Cao C, Huang Y, Chen X, Ma J Nat Commun. 2018 Sep 4;9(1):3585. doi: 10.1038/s41467-018-05942-7. PMID:30181559[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Ramachandran V, Chen X. Degradation of microRNAs by a family of exoribonucleases in Arabidopsis. Science. 2008 Sep 12;321(5895):1490-2. doi: 10.1126/science.1163728. PMID:18787168 doi:http://dx.doi.org/10.1126/science.1163728
- ↑ Chen J, Liu L, You C, Gu J, Ruan W, Zhang L, Gan J, Cao C, Huang Y, Chen X, Ma J. Structural and biochemical insights into small RNA 3' end trimming by Arabidopsis SDN1. Nat Commun. 2018 Sep 4;9(1):3585. doi: 10.1038/s41467-018-05942-7. PMID:30181559 doi:http://dx.doi.org/10.1038/s41467-018-05942-7
