1SFX | pdb_00001sfx

X-ray crystal structure of putative HTH transcription regulator from Archaeoglobus fulgidus

• PDB DOI: https://doi.org/10.2210/pdb1SFX/pdb

• Classification: structural genomics, unknown function
• Organism(s): Archaeoglobus fulgidus DSM 4304
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2004-02-20 Released: 2004-08-03 
• Deposition Author(s): Osipiuk, J., Skarina, T., Savchenko, A., Edwards, A., Cymborowski, M., Minor, W., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.183 (Depositor), 0.193 (DCC) 
• R-Value Work: 
  0.148 (Depositor), 0.163 (DCC) 
• R-Value Observed: 
  0.150 (Depositor) 

Literature

X-ray crystal structure of putative HTH transcription regulator from Archaeoglobus fulgidus

Osipiuk, J., Skarina, T., Savchenko, A., Edwards, A., Cymborowski, M., Minor, W., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 25.85 kDa 
• Atom Count: 2,321 
• Modeled Residue Count: 213 
• Deposited Residue Count: 218 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Conserved hypothetical protein AF2008	A, B	109	Archaeoglobus fulgidus DSM 4304	Mutation(s): 3  Gene Names: AF2008
UniProt
Find proteins for O28271 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)) Explore O28271  Go to UniProtKB:  O28271

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	E [auth A], F [auth A], H [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	C [auth A], D [auth A], G [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.183 (Depositor), 0.193 (DCC) 
• R-Value Work:  0.148 (Depositor), 0.163 (DCC) 
• R-Value Observed: 0.150 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.265	α = 90
b = 59.634	β = 90.11
c = 63.498	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SHELXD	phasing
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-08-03 
Deposition Author(s): Osipiuk, J., Skarina, T., Savchenko, A., Edwards, A., Cymborowski, M., Minor, W., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2004-08-03
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2024-11-20
  Changes: Data collection, Structure summary