3ADL

Structure of TRBP2 and its molecule implications for miRNA processing

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.263 

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This is version 1.1 of the entry. See complete history. 


Literature

Structure of arabidopsis HYPONASTIC LEAVES1 and its molecular implications for miRNA processing

Yang, S.W., Chen, H.Y., Yang, J., Machida, S., Chua, N.H., Yuan, Y.A.

(2010) Structure 18: 594-605

  • DOI: https://doi.org/10.1016/j.str.2010.02.006
  • Primary Citation of Related Structures:  
    3ADG, 3ADI, 3ADJ, 3ADL

  • PubMed Abstract: 

    • 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 ...

    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.

    Organizational Affiliation: 

    Host-Pathogen Interaction Group, Temasek Life Sciences Laboratory, National University of Singapore, 1 Research Link, Singapore 117604, Singapore.



Macromolecules

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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RISC-loading complex subunit TARBP2A88Homo sapiensMutation(s): 0 
Gene Names: TARBP2, TRBP
UniProt & NIH Common Fund Data Resources
Find proteins for Q15633 (Homo sapiens)
Explore Q15633 
Go to UniProtKB:  Q15633
PHAROS:  Q15633
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15633
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsLengthOrganismImage
RNA (5'-R(P*CP*GP*CP*GP*CP*GP*CP*GP*CP*G)-3')B, C10N/A
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.263 
  • Space Group: I 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.3α = 90
b = 60.425β = 90
c = 99.892γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-05-26
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance