3ZKW

Periplasmic Binding Protein CeuE apo form

• PDB DOI: https://doi.org/10.2210/pdb3ZKW/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Campylobacter jejuni
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-01-25 Released: 2013-04-03 
• Deposition Author(s): Raines, D.J., Moroz, O.V., Wilson, K.S., Duhme-Klair, A.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.227 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 

Starting Model: experimental

Literature

Interactions of a Periplasmic Binding Protein with a Tetradentate Siderophore Mimic.

Raines, D.J., Moroz, O.V., Wilson, K.S., Duhme-Klair, A.

(2013) Angew Chem Int Ed Engl 52: 4595

• PubMed: 23512642 
• DOI: https://doi.org/10.1002/anie.201300751
• Primary Citation of Related Structures:  
  3ZKW, 5A1J


• PubMed Abstract: 
  

  Iron-bound structure: The ferric complex of a tetradentate siderophore mimic was synthesized and co-crystallized with the periplasmic binding protein CeuE of Campylobacter jejuni. In addition to electrostatic and hydrogen-bonding interactions between the binding pocket and the substrate, the structure showed direct coordination of two amino acid side chains to the Fe(III) center (orange, see figure).

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Organizational Affiliation: 

Department of Chemistry, University of York, Heslington, York, YO10 5DD, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 95.18 kDa 
• Atom Count: 6,763 
• Modelled Residue Count: 860 
• Deposited Residue Count: 861 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ENTEROCHELIN UPTAKE PERIPLASMIC BINDING PROTEIN	A, C	287	Campylobacter jejuni	Mutation(s): 0
UniProt
Find proteins for Q0P8Q4 (Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168)) Explore Q0P8Q4  Go to UniProtKB:  Q0P8Q4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ENTEROCHELIN UPTAKE PERIPLASMIC BINDING PROTEIN	B	287	Campylobacter jejuni	Mutation(s): 0
UniProt
Find proteins for Q0P8Q4 (Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168)) Explore Q0P8Q4  Go to UniProtKB:  Q0P8Q4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.227 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.95	α = 82.19
b = 62.74	β = 76.74
c = 67.98	γ = 75.96

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-04-03 
Deposition Author(s): Raines, D.J., Moroz, O.V., Wilson, K.S., Duhme-Klair, A.K.

Revision History  

• Version 1.0: 2013-04-03
  Type: Initial release
  
• Version 1.1: 2013-05-01
  Changes: Database references
• Version 1.2: 2023-12-20
  Changes: Data collection, Database references, Other, Refinement description