6M6S image
Entry Detail
PDB ID:
6M6S
Title:
Crystal structure of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3) C-terminal domain with 5'-ppp 12-mer dsRNA
Biological Source:
PDB Version:
Deposition Date:
2020-03-16
Release Date:
2021-03-17
Method Details:
Experimental Method:
Resolution:
1.60 Å
R-Value Free:
0.19
R-Value Work:
0.16
R-Value Observed:
0.17
Space Group:
P 2 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Dicer Related Helicase
Chain IDs:A, B
Chain Length:170
Number of Molecules:2
Biological Source:Caenorhabditis elegans
Polymer Type:polyribonucleotide
Description:RNA (5'-R(*(GTP)P*GP*CP*GP*CP*GP*CP*GP*CP*GP*CP*C)-3')
Chain IDs:C, D
Chain Length:12
Number of Molecules:2
Biological Source:synthetic construct
Ligand Molecules
Primary Citation
Insights into the structure and RNA-binding specificity of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3).
Nucleic Acids Res. 49 9978 9991 (2021)
PMID: 34403472 DOI: 10.1093/nar/gkab712

Abstact

DRH-3 is critically involved in germline development and RNA interference (RNAi) facilitated chromosome segregation via the 22G-siRNA pathway in Caenorhabditis elegans. DRH-3 has similar domain architecture to RIG-I-like receptors (RLRs) and belongs to the RIG-I-like RNA helicase family. The molecular understanding of DRH-3 and its function in endogenous RNAi pathways remains elusive. In this study, we solved the crystal structures of the DRH-3 N-terminal domain (NTD) and the C-terminal domains (CTDs) in complex with 5'-triphosphorylated RNAs. The NTD of DRH-3 adopts a distinct fold of tandem caspase activation and recruitment domains (CARDs) structurally similar to the CARDs of RIG-I and MDA5, suggesting a signaling function in the endogenous RNAi biogenesis. The CTD preferentially recognizes 5'-triphosphorylated double-stranded RNAs bearing the typical features of secondary siRNA transcripts. The full-length DRH-3 displays unique structural dynamics upon binding to RNA duplexes that differ from RIG-I or MDA5. These features of DRH-3 showcase the evolutionary divergence of the Dicer and RLR family of helicases.

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Primary Citation of related structures