3ADI image
Deposition Date 2010-01-22
Release Date 2010-05-26
Last Version Date 2023-11-01
Entry Detail
PDB ID:
3ADI
Keywords:
GENE REGULATION/RNA
Title:
Structure of Arabidopsis HYL1 and its molecular implications for miRNA processing
Biological Source:
Source Organism:
Arabidopsis thaliana (Taxon ID: 3702)
(Taxon ID: )
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
3.20 Å
R-Value Free:
0.31
R-Value Work:
0.20
R-Value Observed:
0.21
Space Group:
P 43
3ADI validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:F21M12.9 protein
Gene (Uniprot):DRB1
Chain IDs:A, B, C
Chain Length:73
Number of Molecules:3
Biological Source:Arabidopsis thaliana
UniProt ID:O04492 Pfam ID:PF00035
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(P*CP*UP*CP*GP*AP*UP*AP*AP*CP*C)-3')
Chain IDs:D
Chain Length:10
Number of Molecules:1
Biological Source:
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(*GP*GP*UP*UP*AP*UP*CP*GP*AP*G)-3')
Chain IDs:E
Chain Length:10
Number of Molecules:1
Biological Source:
Ligand Molecules
NA
Primary Citation
Structure of arabidopsis HYPONASTIC LEAVES1 and its molecular implications for miRNA processing
Structure 18 594 605 (2010)
PMID: 20462493 DOI: 10.1016/j.str.2010.02.006

Abstact

The Arabidopsis HYPONASTIC LEAVES1 (HYL1) is a double-stranded RNA-binding protein that forms a complex with DICER-LIKE1 (DCL1) and SERRATE to facilitate processing of primary miRNAs into microRNAs (miRNAs). However, the structural mechanisms of miRNA maturation by this complex are poorly understood. Here, we present the crystal structures of double-stranded RNA binding domains (dsRBD1 and dsRBD2) of HYL1 and HYL1 dsRBD1 (HR1)/dsRNA complex as well as human TRBP2 dsRBD2 (TR2)/dsRNA complex for comparison analysis. Structural and functional study demonstrates that both HR1 and TR2 are canonical dsRBDs for dsRNA binding, whereas HR2 of HYL1 is a non-canonical dsRBD harboring a putative dimerization interface. Domain swapping within the context of HYL1 demonstrates that TR2 can supplant the function of HR1 in vitro and in vivo. Further biochemical analyses suggest that HYL1 probably binds to the miRNA/miRNA(*) region of precursors as a dimer mediated by HR2.

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Primary Citation of related structures
3ADG
3ADJ
3ADL