5W6V

The Structure of human Argonaute-1 in complex with the hook motif of human GW182


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.83 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.202 

wwPDB Validation   3D Report Full Report


This is version 1.6 of the entry. See complete history


Literature

Multivalent Recruitment of Human Argonaute by GW182.

Elkayam, E.Faehnle, C.R.Morales, M.Sun, J.Li, H.Joshua-Tor, L.

(2017) Mol Cell 67: 646-658.e3

  • DOI: https://doi.org/10.1016/j.molcel.2017.07.007

  • PubMed Abstract: 

    In miRNA-mediated gene silencing, the physical interaction between human Argonaute (hAgo) and GW182 (hGW182) is essential for facilitating the downstream silencing of the targeted mRNA. GW182 can interact with hAgo via three of the GW/WG repeats in its Argonaute-binding domain: motif-1, motif-2, and the hook motif. The structure of hAgo1 in complex with the hook motif of hGW182 reveals a "gate"-like interaction that is critical for GW182 docking into one of hAgo1's tryptophan-binding pockets. We show that hAgo1 and hAgo2 have a single GW182-binding site and that miRNA binding increases hAgo's affinity to GW182. With target binding occurring rapidly, this ensures that only mature RISC would be recruited for silencing. Finally, we show that hGW182 can recruit up to three copies of hAgo via its three GW motifs. This may explain the observed cooperativity in miRNA-mediated gene silencing.


  • Organizational Affiliation

    Keck Structural Biology Laboratory, Howard Hughes Medical Institute, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein argonaute-1859Homo sapiensMutation(s): 0 
Gene Names: AGO1EIF2C1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UL18 (Homo sapiens)
Explore Q9UL18 
Go to UniProtKB:  Q9UL18
PHAROS:  Q9UL18
GTEx:  ENSG00000092847 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UL18
Sequence Annotations
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  • Reference Sequence

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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Trinucleotide repeat-containing gene 6A proteinC [auth B]24Homo sapiensMutation(s): 0 
Gene Names: TNRC6ACAGH26KIAA1460TNRC6
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NDV7 (Homo sapiens)
Explore Q8NDV7 
Go to UniProtKB:  Q8NDV7
PHAROS:  Q8NDV7
GTEx:  ENSG00000090905 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NDV7
Sequence Annotations
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  • Reference Sequence

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Entity ID: 2
MoleculeChains LengthOrganismImage
RNA (5'-R(P*AP*AP*UP*AP*UP*UP*AP*AP*AP*A)-3')B [auth R]20Spodoptera frugiperda
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.83 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.202 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.75α = 90
b = 136.861β = 90
c = 86.054γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2017-07-26
    Type: Initial release
  • Version 1.1: 2017-08-09
    Changes: Database references
  • Version 1.2: 2017-08-23
    Changes: Database references
  • Version 1.3: 2017-08-30
    Changes: Database references
  • Version 1.4: 2017-11-22
    Changes: Refinement description
  • Version 1.5: 2019-11-20
    Changes: Author supporting evidence
  • Version 1.6: 2023-10-04
    Changes: Data collection, Database references, Refinement description