5D8L | pdb_00005d8l

Human HSF2 DNA Binding Domain in complex with 3-site HSE DNA at 2.1 Angstroms Resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 
    0.273 (Depositor), 0.279 (DCC) 
  • R-Value Work: 
    0.217 (Depositor), 0.224 (DCC) 
  • R-Value Observed: 
    0.220 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 5D8L

This is version 1.4 of the entry. See complete history

Literature

Structures of HSF2 reveal mechanisms for differential regulation of human heat-shock factors.

Jaeger, A.M.Pemble, C.W.Sistonen, L.Thiele, D.J.

(2016) Nat Struct Mol Biol 23: 147-154

  • DOI: https://doi.org/10.1038/nsmb.3150
  • Primary Citation Related Structures: 
    5D8K, 5D8L

  • PubMed Abstract: 

    Heat-shock transcription factor (HSF) family members function in stress protection and in human diseases including proteopathies, neurodegeneration and cancer. The mechanisms that drive distinct post-translational modifications, cofactor recruitment and target-gene activation for specific HSF paralogs are unknown. We present crystal structures of the human HSF2 DNA-binding domain (DBD) bound to DNA, revealing an unprecedented view of HSFs that provides insights into their unique biology. The HSF2 DBD structures resolve a new C-terminal helix that directs wrapping of the coiled-coil domain around DNA, thereby exposing paralog-specific sequences of the DBD surface for differential post-translational modifications and cofactor interactions. We further demonstrate a direct interaction between HSF1 and HSF2 through their coiled-coil domains. Together, these features provide a new model for HSF structure as the basis for differential and combinatorial regulation, which influences the transcriptional response to cellular stress.


  • Organizational Affiliation
    • Department of Pharmacology and Cancer Biology, Duke University School of Medicine, Durham, North Carolina, USA.

Macromolecule Content 

  • Total Structure Weight: 73.02 kDa 
  • Atom Count: 5,138 
  • Modeled Residue Count: 475 
  • Deposited Residue Count: 508 
  • Unique protein chains: 1
  • Unique nucleic acid chains: 2

Macromolecules


Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Heat shock factor protein 2
B, D, F, H
110Homo sapiensMutation(s): 0 
Gene Names: HSF2HSTF2
UniProt & NIH Common Fund Data Resources
Find proteins for Q03933 (Homo sapiens)
Explore Q03933 
Go to UniProtKB:  Q03933
PHAROS:  Q03933
GTEx:  ENSG00000025156 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ03933
Sequence Annotations
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Reference Sequence
Find similar nucleic acids by:  Sequence
Entity ID: 1
MoleculeChains LengthOrganismImage
DNA (5'-D(P*GP*TP*GP*AP*AP*TP*AP*TP*TP*CP*TP*AP*GP*AP*AP*CP*C)-3')
A, G
17synthetic construct
Sequence Annotations
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Reference Sequence
Find similar nucleic acids by:  Sequence
Entity ID: 3
MoleculeChains LengthOrganismImage
DNA (5'-D(*GP*GP*TP*TP*CP*TP*AP*GP*AP*AP*TP*AP*TP*TP*CP*AP*C)-3')
C, E
17synthetic construct
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free:  0.273 (Depositor), 0.279 (DCC) 
  • R-Value Work:  0.217 (Depositor), 0.224 (DCC) 
  • R-Value Observed: 0.220 (Depositor) 
Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.174α = 82.82
b = 47.14β = 90.03
c = 109.587γ = 64.75
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-01-06
    Type: Initial release
  • Version 1.1: 2016-02-03
    Changes: Database references
  • Version 1.2: 2016-02-10
    Changes: Database references
  • Version 1.3: 2017-09-27
    Changes: Author supporting evidence, Derived calculations
  • Version 1.4: 2024-03-06
    Changes: Data collection, Database references