5GGY

X-ray crystal structure of Periplasmic Desferal binding protein FhuD from Vibrio cholerae

• PDB DOI: https://doi.org/10.2210/pdb5GGY/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Vibrio cholerae O395
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-06-16 Released: 2017-02-22 
• Deposition Author(s): Agarwal, S., Dey, S., Ghosh, B., Dasgupta, J.
• Funding Organization(s): DAE (BRNS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.240 
• R-Value Work: 0.190 
• R-Value Observed: 0.193 

Literature

X-ray crystal structure of Periplasmic Desferal binding protein FhuD from Vibrio cholerae

Agarwal, S., Biswas, M., Dasgupta, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 62.49 kDa 
• Atom Count: 4,324 
• Modelled Residue Count: 533 
• Deposited Residue Count: 564 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Iron(III) ABC transporter, periplasmic iron-compound-binding protein	A, B [auth N]	282	Vibrio cholerae O395	Mutation(s): 0  Gene Names: VC0395_A2582
UniProt
Find proteins for A0A0H3AJ03 (Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)) Explore A0A0H3AJ03  Go to UniProtKB:  A0A0H3AJ03

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	C [auth A], D [auth N]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.240 
• R-Value Work: 0.190 
• R-Value Observed: 0.193 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.246	α = 90
b = 71.746	β = 90
c = 125.889	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHASER	model building
SCALA	data scaling
XDS	data processing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-02-22 
Deposition Author(s): Agarwal, S., Dey, S., Ghosh, B., Dasgupta, J.

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Funding Organization	Location	Grant Number
DAE (BRNS)	India	2013/37B/26/brns

Revision History  

• Version 1.0: 2017-02-22
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description