1T2K

Structure Of The DNA Binding Domains Of IRF3, ATF-2 and Jun Bound To DNA

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.257 
  • R-Value Observed: 0.257 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Crystal structure of ATF-2/c-Jun and IRF-3 bound to the interferon-beta enhancer.

Panne, D., Maniatis, T., Harrison, S.C.

(2004) EMBO J 23: 4384-4393

  • DOI: 10.1038/sj.emboj.7600453
  • Structures With Same Primary Citation

  • PubMed Abstract: 

    • Transcriptional activation of the interferon-beta (IFN-beta) gene requires assembly of an enhanceosome containing the transcription factors ATF-2/c-Jun, IRF-3/IRF-7, NF-kappaB and HMGI(Y). These factors cooperatively bind a composite DNA site and act ...

    Transcriptional activation of the interferon-beta (IFN-beta) gene requires assembly of an enhanceosome containing the transcription factors ATF-2/c-Jun, IRF-3/IRF-7, NF-kappaB and HMGI(Y). These factors cooperatively bind a composite DNA site and activate expression of the IFN-beta gene. The 3.0 A crystal structure of the DNA-binding domains of ATF-2/c-Jun and two IRF-3 molecules in a complex with 31 base pairs (bp) of the PRDIV-PRDIII region of the IFN-beta enhancer shows that association of the four proteins with DNA creates a continuous surface for the recognition of 24 bp. The structure, together with in vitro binding studies and protein mutagenesis, shows that protein-protein interactions are not critical for cooperative binding. Instead, cooperativity arises mainly through nucleotide sequence-dependent structural changes in the DNA that allow formation of complementary DNA conformations. Because the binding sites overlap on the enhancer, the unit of recognition is the entire nucleotide sequence, not the individual subsites.

    Organizational Affiliation: 

    Department of Biological Chemistry & Molecular Pharmacology, Howard Hughes Medical Institute, Harvard Medical School, Boston, MA, USA.



Macromolecules

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Transcription factor AP-1
C
62Homo sapiensMutation(s): 1 
Gene Names: JUN
Find proteins for P05412 (Homo sapiens)
Go to UniProtKB:  P05412
NIH Common Fund Data Resources
PHAROS  P05412
GTEx  ENSG00000177606

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Cyclic-AMP-dependent transcription factor ATF-2
D
61Homo sapiensMutation(s): 1 
Gene Names: ATF2, CREB2, CREBP1
EC: 2.3.1.48
Find proteins for P15336 (Homo sapiens)
Go to UniProtKB:  P15336
NIH Common Fund Data Resources
PHAROS  P15336
GTEx  ENSG00000115966

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Interferon regulatory factor 3
A, B
112Homo sapiensMutation(s): 0 
Gene Names: IRF3
Find proteins for Q14653 (Homo sapiens)
Go to UniProtKB:  Q14653
NIH Common Fund Data Resources
PHAROS  Q14653
GTEx  ENSG00000126456

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Entity ID: 2
MoleculeChainsLengthOrganism
31-MERF31N/A

Find similar nucleic acids by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
31-MERE31N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.257 
  • R-Value Observed: 0.257 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 186.38α = 90
b = 65.21β = 93.44
c = 83.85γ = 90
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-11-16
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance