6QHD

Lysine acetylated and tyrosine phosphorylated STAT3 in a complex with DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.343 
  • R-Value Work: 0.294 
  • R-Value Observed: 0.297 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Unexpected implications of STAT3 acetylation revealed by genetic encoding of acetyl-lysine.

Belo, Y.Mielko, Z.Nudelman, H.Afek, A.Ben-David, O.Shahar, A.Zarivach, R.Gordan, R.Arbely, E.

(2019) Biochim Biophys Acta Gen Subj 1863: 1343-1350

  • DOI: https://doi.org/10.1016/j.bbagen.2019.05.019
  • Primary Citation of Related Structures:  
    6QHD

  • PubMed Abstract: 

    The signal transducer and activator of transcription 3 (STAT3) protein is activated by phosphorylation of a specific tyrosine residue (Tyr705) in response to various extracellular signals. STAT3 activity was also found to be regulated by acetylation of Lys685. However, the molecular mechanism by which Lys685 acetylation affects the transcriptional activity of STAT3 remains elusive. By genetically encoding the co-translational incorporation of acetyl-lysine into position Lys685 and co-expression of STAT3 with the Elk receptor tyrosine kinase, we were able to characterize site-specifically acetylated, and simultaneously acetylated and phosphorylated STAT3. We measured the effect of acetylation on the crystal structure, and DNA binding affinity and specificity of Tyr705-phosphorylated and non-phosphorylated STAT3. In addition, we monitored the deacetylation of acetylated Lys685 by reconstituting the mammalian enzymatic deacetylation reaction in live bacteria. Surprisingly, we found that acetylation, per se, had no effect on the crystal structure, and DNA binding affinity or specificity of STAT3, implying that the previously observed acetylation-dependent transcriptional activity of STAT3 involves an additional cellular component. In addition, we discovered that Tyr705-phosphorylation protects Lys685 from deacetylation in bacteria, providing a new possible explanation for the observed correlation between STAT3 activity and Lys685 acetylation.


  • Organizational Affiliation

    Department of Chemistry, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel; The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel; Department of Life Sciences, Ben-Gurion University of the Negev, Beer-Sheva, 8410501, Israel. Electronic address: arbely@bgu.ac.il.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Signal transducer and activator of transcription 3
A, B
596Homo sapiensMutation(s): 0 
Gene Names: STAT3APRF
UniProt & NIH Common Fund Data Resources
Find proteins for P40763 (Homo sapiens)
Explore P40763 
Go to UniProtKB:  P40763
GTEx:  ENSG00000168610 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP40763
Sequence Annotations
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  • Reference Sequence

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Entity ID: 2
MoleculeChains LengthOrganismImage
DNA (5'-D(*AP*AP*GP*AP*TP*TP*TP*AP*CP*GP*GP*GP*AP*AP*AP*TP*GP*C)-3')18Murine adenovirus 1
Sequence Annotations
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  • Reference Sequence

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Entity ID: 3
MoleculeChains LengthOrganismImage
DNA (5'-D(*TP*GP*CP*AP*TP*TP*TP*CP*CP*CP*GP*TP*AP*AP*AP*TP*CP*T)-3')18Murine adenovirus 1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Modified Residues  2 Unique
IDChains TypeFormula2D DiagramParent
ALY
Query on ALY
A, B
L-PEPTIDE LINKINGC8 H16 N2 O3LYS
PTR
Query on PTR
A, B
L-PEPTIDE LINKINGC9 H12 N O6 PTYR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.343 
  • R-Value Work: 0.294 
  • R-Value Observed: 0.297 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 175.491α = 90
b = 175.491β = 90
c = 79.078γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Israel Science FoundationIsrael807/15

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-19
    Type: Initial release
  • Version 1.1: 2019-06-26
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Refinement description