4KRE

Structure of Human Argonaute-1 bound to endogenous Sf9 RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.172 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The making of a slicer: activation of human argonaute-1.

Faehnle, C.R.Elkayam, E.Haase, A.D.Hannon, G.J.Joshua-Tor, L.

(2013) Cell Rep 3: 1901-1909

  • DOI: 10.1016/j.celrep.2013.05.033
  • Primary Citation of Related Structures:  
    4KRE, 4KRF

  • PubMed Abstract: 
  • Argonautes are the central protein component in small RNA silencing pathways. Of the four human Argonautes (hAgo1-hAgo4) only hAgo2 is an active slicer. We determined the structure of hAgo1 bound to endogenous copurified RNAs to 1.75 Å resolution and ...

    Argonautes are the central protein component in small RNA silencing pathways. Of the four human Argonautes (hAgo1-hAgo4) only hAgo2 is an active slicer. We determined the structure of hAgo1 bound to endogenous copurified RNAs to 1.75 Å resolution and hAgo1 loaded with let-7 microRNA to 2.1 Å. Both structures are strikingly similar to the structures of hAgo2. A conserved catalytic tetrad within the PIWI domain of hAgo2 is required for its slicing activity. Completion of the tetrad, combined with a mutation on a loop adjacent to the active site of hAgo1, results in slicer activity that is substantially enhanced by swapping in the N domain of hAgo2. hAgo3, with an intact tetrad, becomes an active slicer by swapping the N domain of hAgo2 without additional mutations. Intriguingly, the elements that make Argonaute an active slicer involve a sophisticated interplay between the active site and more distant regions of the enzyme.


    Organizational Affiliation

    W.M. Keck Structural Biology Laboratory, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein argonaute-1A858Homo sapiensMutation(s): 0 
Gene Names: AGO1EIF2C1
Find proteins for Q9UL18 (Homo sapiens)
Explore Q9UL18 
Go to UniProtKB:  Q9UL18
NIH Common Fund Data Resources
PHAROS  Q9UL18
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*AP*AP*UP*AP*UP*UP*AP*AP*A*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')R20Spodoptera frugiperda
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 1.75 Å
    • R-Value Free: 0.202 
    • R-Value Work: 0.171 
    • R-Value Observed: 0.172 
    • Space Group: P 1 21 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 70.47α = 90
    b = 98.63β = 110.96
    c = 73.21γ = 90
    Software Package:
    Software NamePurpose
    XSCALEdata scaling
    PHASERphasing
    PHENIXrefinement
    PDB_EXTRACTdata extraction
    CBASSdata collection
    XDSdata reduction

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History 

    • Version 1.0: 2013-06-19
      Type: Initial release
    • Version 1.1: 2013-07-17
      Changes: Database references