5D5Y | pdb_00005d5y

Structure of Chaetomium thermophilum Skn7 coiled-coil domain, crystal form I

• PDB DOI: https://doi.org/10.2210/pdb5D5Y/pdb

• Classification: TRANSCRIPTION
• Organism(s): Thermochaetoides thermophila
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-08-11 Released: 2015-12-30 
• Deposition Author(s): Neudegger, T., Verghese, J., Hayer-Hartl, M., Hartl, F.U., Bracher, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.03 Å
• R-Value Free: 
  0.199 (Depositor), 0.209 (DCC) 
• R-Value Work: 
  0.165 (Depositor), 0.169 (DCC) 
• R-Value Observed: 
  0.166 (Depositor) 

Literature

Structure of human heat-shock transcription factor 1 in complex with DNA.

Neudegger, T., Verghese, J., Hayer-Hartl, M., Hartl, F.U., Bracher, A.

(2016) Nat Struct Mol Biol 23: 140-146

• PubMed: 26727489 
• DOI: https://doi.org/10.1038/nsmb.3149
• Primary Citation Related Structures: 
  5D5U, 5D5V, 5D5W, 5D5X, 5D5Y, 5D5Z, 5D60


• PubMed Abstract: 
  

  Heat-shock transcription factor 1 (HSF1) has a central role in mediating the protective response to protein conformational stresses in eukaryotes. HSF1 consists of an N-terminal DNA-binding domain (DBD), a coiled-coil oligomerization domain, a regulatory domain and a transactivation domain. Upon stress, HSF1 trimerizes via its coiled-coil domain and binds to the promoters of heat shock protein-encoding genes. Here, we present cocrystal structures of the human HSF1 DBD in complex with cognate DNA. A comparative analysis of the HSF1 paralog Skn7 from Chaetomium thermophilum showed that single amino acid changes in the DBD can switch DNA binding specificity, thus revealing the structural basis for the interaction of HSF1 with cognate DNA. We used a crystal structure of the coiled-coil domain of C. thermophilum Skn7 to develop a model of the active human HSF1 trimer in which HSF1 embraces the heat-shock-element DNA.

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Organizational Affiliation: 
• Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Martinsried, Germany.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 11.42 kDa 
• Atom Count: 976 
• Modeled Residue Count: 100 
• Deposited Residue Count: 100 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative transcription factor	A [auth B], B [auth A]	50	Thermochaetoides thermophila	Mutation(s): 0  Gene Names: CTHT_0048700
UniProt
Find proteins for G0SB31 (Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)) Explore G0SB31  Go to UniProtKB:  G0SB31

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.03 Å
• R-Value Free:  0.199 (Depositor), 0.209 (DCC) 
• R-Value Work:  0.165 (Depositor), 0.169 (DCC) 
• R-Value Observed: 0.166 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 24.823	α = 90
b = 151.535	β = 90
c = 47.745	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
SHELX	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-12-30 
Deposition Author(s): Neudegger, T., Verghese, J., Hayer-Hartl, M., Hartl, F.U., Bracher, A.

Revision History  

• Version 1.0: 2015-12-30
  Type: Initial release
  
• Version 1.1: 2016-01-13
  Changes: Database references
• Version 1.2: 2016-01-20
  Changes: Structure summary
• Version 1.3: 2016-02-10
  Changes: Database references
• Version 1.4: 2024-10-16
  Changes: Data collection, Database references, Structure summary