2WHY | pdb_00002why

Crystal structure of the triscatecholate siderophore binding protein FeuA from Bacillus subtilis complexed with Ferri-Bacillibactin

• PDB DOI: https://doi.org/10.2210/pdb2WHY/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Bacillus subtilis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2009-05-07 Released: 2009-09-29 
• Deposition Author(s): Peuckert, F., Miethke, M., Albrecht, A.G., Essen, L.-O., Marahiel, M.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.191 (Depositor), 0.198 (DCC) 
• R-Value Work: 
  0.157 (Depositor), 0.168 (DCC) 
• R-Value Observed: 
  0.160 (Depositor) 

Starting Model: experimental

Literature

Structural Basis and Stereochemistry of Triscatecholate Siderophore Binding by Feua.

Peuckert, F., Miethke, M., Albrecht, A.G., Essen, L.-O., Marahiel, M.A.

(2009) Angew Chem Int Ed Engl 48: 7924

• PubMed: 19746494 
• DOI: https://doi.org/10.1002/anie.200902495
• Primary Citation Related Structures: 
  2WHY, 2WI8

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Organizational Affiliation: 
• Fachbereich Chemie, Biochemie, Philipps-Universität Marburg, Hans-Meerwein-Strasse, 35032 Marburg, Germany.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 36.09 kDa 
• Atom Count: 2,403 
• Modeled Residue Count: 292 
• Deposited Residue Count: 320 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Iron-uptake system-binding protein	A	311	Bacillus subtilis	Mutation(s): 0  Gene Names: feuA, BSU01630
UniProt
Find proteins for P40409 (Bacillus subtilis (strain 168)) Explore P40409  Go to UniProtKB:  P40409

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
BACILLIBACTIN	B	9	Bacillus subtilis	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FE	N [auth B]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N
CL	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.191 (Depositor), 0.198 (DCC) 
• R-Value Work:  0.157 (Depositor), 0.168 (DCC) 
• R-Value Observed: 0.160 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.53	α = 90
b = 63.14	β = 110.44
c = 55.53	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-09-29 
Deposition Author(s): Peuckert, F., Miethke, M., Albrecht, A.G., Essen, L.-O., Marahiel, M.A.

Revision History  

• Version 1.0: 2009-09-29
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2011-12-28
  Changes: Other
• Version 2.0: 2023-12-13
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Other, Polymer sequence, Refinement description, Source and taxonomy, Structure summary
• Version 3.0: 2024-05-29
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
• Version 3.1: 2024-11-13
  Changes: Structure summary