4JRH | pdb_00004jrh

Crystal structure of beta-ketoacyl-ACP synthase II (FabF) from Vibrio Cholerae (space group P43) at 2.2 Angstrom

• PDB DOI: https://doi.org/10.2210/pdb4JRH/pdb

• Classification: TRANSFERASE
• Organism(s): Vibrio cholerae O1 biovar El Tor str. N16961
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-03-21 Released: 2013-04-03 
• Deposition Author(s): Hou, J., Chruszcz, M., Shabalin, I.G., Zheng, H., Cooper, D.R., 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: 2.20 Å
• R-Value Free: 
  0.199 (Depositor), 0.202 (DCC) 
• R-Value Work: 
  0.167 (Depositor), 0.174 (DCC) 
• R-Value Observed: 
  0.169 (Depositor) 

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: 87.17 kDa 
• Atom Count: 6,332 
• Modeled Residue Count: 825 
• Deposited Residue Count: 834 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3-oxoacyl-[acyl-carrier-protein] synthase 2	A, B	417	Vibrio cholerae O1 biovar El Tor str. N16961	Mutation(s): 0  Gene Names: fabF, VC2019, VC_2019 EC: 2.3.1.179
UniProt
Find proteins for Q9KQH9 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)) Explore Q9KQH9  Go to UniProtKB:  Q9KQH9

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	C [auth A], D [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.199 (Depositor), 0.202 (DCC) 
• R-Value Work:  0.167 (Depositor), 0.174 (DCC) 
• R-Value Observed: 0.169 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m34jrh

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.547	α = 90
b = 124.547	β = 90
c = 64.393	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-04-03 
Deposition Author(s): Hou, J., Chruszcz, M., Shabalin, I.G., Zheng, H., Cooper, D.R., Anderson, W.F., Minor, W., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2013-04-03
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2024-02-28
  Changes: Data collection, Refinement description