4IW7 | pdb_00004iw7

Crystal structure of 8-amino-7-oxononanoate synthase (bioF) from Francisella tularensis.

• PDB DOI: https://doi.org/10.2210/pdb4IW7/pdb

• Classification: TRANSFERASE
• Organism(s): Francisella tularensis subsp. tularensis SCHU S4
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-01-23 Released: 2013-02-13 
• Deposition Author(s): Newcomb, W., Niedzialkowska, E., Porebski, P.J., Grimshaw, S., Anderson, W.F., Minor, W., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 
  0.238 (Depositor), 0.233 (DCC) 
• R-Value Work: 
  0.186 (Depositor), 0.187 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of 8-amino-7-oxononanoate synthase (bioF) from Francisella tularensis.

Newcomb, W., Niedzialkowska, E., Porebski, P.J., Grimshaw, S., Anderson, W.F., Minor, W.

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: 45.42 kDa 
• Atom Count: 2,750 
• Modeled Residue Count: 335 
• Deposited Residue Count: 399 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
8-amino-7-oxononanoate synthase	A	399	Francisella tularensis subsp. tularensis SCHU S4	Mutation(s): 0  Gene Names: bioF, FTT0936c, FTT_0936c EC: 2.3.1.47
UniProt
Find proteins for Q5NGB3 (Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4)) Explore Q5NGB3  Go to UniProtKB:  Q5NGB3

Small Molecules

Modified Residues  2 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
CSD	A	CYS	Oxidation	C3 H7 N O4 S
CSD	A	CYS	Hydroxylation	C3 H7 N O4 S

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free:  0.238 (Depositor), 0.233 (DCC) 
• R-Value Work:  0.186 (Depositor), 0.187 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34IW7

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.486	α = 90
b = 113.486	β = 90
c = 158.128	γ = 120

Software Package:

Software Name	Purpose
HKL-3000	phasing
MOLREP	phasing
REFMAC	refinement
Coot	model building
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-02-13 
Deposition Author(s): Newcomb, W., Niedzialkowska, E., Porebski, P.J., Grimshaw, S., Anderson, W.F., Minor, W., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2013-02-13
  Type: Initial release
  
• Version 1.1: 2014-11-12
  Changes: Structure summary
• Version 1.2: 2017-11-15
  Changes: Refinement description
• Version 1.3: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2023-09-20
  Changes: Data collection, Refinement description
• Version 1.5: 2024-11-20
  Changes: Structure summary