3OF5

Crystal Structure of a Dethiobiotin Synthetase from Francisella tularensis subsp. tularensis SCHU S4

• PDB DOI: https://doi.org/10.2210/pdb3OF5/pdb

• Classification: LIGASE
• Organism(s): Francisella tularensis subsp. tularensis SCHU S4
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-08-13 Released: 2011-02-02 
• Deposition Author(s): Brunzelle, J.S., Skarina, T., Gordon, E., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.198 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 

Literature

Crystal Structure of a Dethiobiotin Synthetase from Francisella tularensis subsp. tularensis SCHU S4

Brunzelle, J.S., Skarina, T., Gordon, E., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases

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)

Macromolecule Content

• Total Structure Weight: 51.36 kDa 
• Atom Count: 4,461 
• Modelled Residue Count: 439 
• Deposited Residue Count: 456 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dethiobiotin synthetase	A, B	228	Francisella tularensis subsp. tularensis SCHU S4	Mutation(s): 0  Gene Names: bioD, FTT_0934c EC: 6.3.3.3
UniProt
Find proteins for Q5NGB5 (Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4)) Explore Q5NGB5  Go to UniProtKB:  Q5NGB5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	C [auth A], F [auth A], G [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
NA	D [auth A], E [auth A], H [auth B], I [auth B], J [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

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: 1.52 Å
• R-Value Free: 0.198 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/m33of5

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.278	α = 90
b = 93.177	β = 95.78
c = 62.732	γ = 90

Software Package:

Software Name	Purpose
BLU-MAX	data collection
PHENIX	model building
BUSTER	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-02-02 
Deposition Author(s): Brunzelle, J.S., Skarina, T., Gordon, E., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2011-02-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2018-01-24
  Changes: Database references
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary