3RN5

Structural basis of cytosolic DNA recognition by innate immune receptors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.202 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structures of the HIN Domain:DNA Complexes Reveal Ligand Binding and Activation Mechanisms of the AIM2 Inflammasome and IFI16 Receptor.

Jin, T.Perry, A.Jiang, J.Smith, P.Curry, J.A.Unterholzner, L.Jiang, Z.Horvath, G.Rathinam, V.A.Johnstone, R.W.Hornung, V.Latz, E.Bowie, A.G.Fitzgerald, K.A.Xiao, T.S.

(2012) Immunity 36: 561-571

  • DOI: 10.1016/j.immuni.2012.02.014
  • Primary Citation of Related Structures:  
    3RLN, 3RLO, 3RN2, 3RN5, 3RNU

  • PubMed Abstract: 
  • Recognition of DNA by the innate immune system is central to antiviral and antibacterial defenses, as well as an important contributor to autoimmune diseases involving self DNA. AIM2 (absent in melanoma 2) and IFI16 (interferon-inducible protein 16) have been identified as DNA receptors that induce inflammasome formation and interferon production, respectively ...

    Recognition of DNA by the innate immune system is central to antiviral and antibacterial defenses, as well as an important contributor to autoimmune diseases involving self DNA. AIM2 (absent in melanoma 2) and IFI16 (interferon-inducible protein 16) have been identified as DNA receptors that induce inflammasome formation and interferon production, respectively. Here we present the crystal structures of their HIN domains in complex with double-stranded (ds) DNA. Non-sequence-specific DNA recognition is accomplished through electrostatic attraction between the positively charged HIN domain residues and the dsDNA sugar-phosphate backbone. An intramolecular complex of the AIM2 Pyrin and HIN domains in an autoinhibited state is liberated by DNA binding, which may facilitate the assembly of inflammasomes along the DNA staircase. These findings provide mechanistic insights into dsDNA as the activation trigger and oligomerization platform for the assembly of large innate signaling complexes such as the inflammasomes.


    Organizational Affiliation

    Structural Immunobiology Unit, Laboratory of Immunology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD 20892-0430, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Interferon-inducible protein AIM2A, B, C, D208Homo sapiensMutation(s): 0 
Gene Names: AIM2
Find proteins for O14862 (Homo sapiens)
Explore O14862 
Go to UniProtKB:  O14862
NIH Common Fund Data Resources
PHAROS:  O14862
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*CP*CP*AP*TP*CP*AP*AP*AP*GP*AP*GP*AP*GP*AP*AP*AP*GP*AP*G)-3')E [auth K], G [auth M]19N/A
    Protein Feature View
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    • Reference Sequence
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 3
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(*GP*CP*TP*CP*TP*TP*TP*CP*TP*CP*TP*CP*TP*TP*TP*GP*AP*TP*G)-3')F [auth L], H [auth N]19N/A
      Protein Feature View
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      • Reference Sequence
      Small Molecules
      Ligands 1 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      EDO
      Query on EDO

      Download Ideal Coordinates CCD File 
      I [auth A] , J [auth A] , K [auth B] , L [auth B] , M [auth C] , N [auth D] , O [auth D] , P [auth D] , 
      I [auth A],  J [auth A],  K [auth B],  L [auth B],  M [auth C],  N [auth D],  O [auth D],  P [auth D],  Q [auth D]
      1,2-ETHANEDIOL
      C2 H6 O2
      LYCAIKOWRPUZTN-UHFFFAOYSA-N
       Ligand Interaction
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.50 Å
      • R-Value Free: 0.241 
      • R-Value Work: 0.201 
      • R-Value Observed: 0.202 
      • Space Group: P 1 21 1
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 62.36α = 90
      b = 136.36β = 89.98
      c = 77.04γ = 90
      Software Package:
      Software NamePurpose
      Blu-Icedata collection
      PHASERphasing
      PHENIXrefinement
      XDSdata reduction
      XDSdata scaling

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      • Deposited Date: 2011-04-21 
      • Released Date: 2012-04-25 
      • Deposition Author(s): Jin, T.C., Xiao, T.

      Revision History  (Full details and data files)

      • Version 1.0: 2012-04-25
        Type: Initial release
      • Version 1.1: 2012-05-09
        Changes: Database references