8ONF

Crystal structure of Bdellovibrio bacteriovorus Bd2439 fibre C-terminal domains with ethylene glycol

• PDB DOI: https://doi.org/10.2210/pdb8ONF/pdb

• Classification: CELL ADHESION
• Organism(s): Bdellovibrio bacteriovorus HD100
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-04-02 Released: 2023-10-25 
• Deposition Author(s): Caulton, S.G., Lovering, A.L.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.53 Å
• R-Value Free: 0.185 
• R-Value Work: 0.164 
• R-Value Observed: 0.165 

Literature

Title to be confirmed

Caulton, S.G., Lovering, A.L.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 91.44 kDa 
• Atom Count: 6,746 
• Modelled Residue Count: 769 
• Deposited Residue Count: 858 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cell wall surface anchor family protein	A, B, C	286	Bdellovibrio bacteriovorus HD100	Mutation(s): 0  Gene Names: Bd2439
UniProt
Find proteins for Q6MKF5 (Bdellovibrio bacteriovorus (strain ATCC 15356 / DSM 50701 / NCIMB 9529 / HD100)) Explore Q6MKF5  Go to UniProtKB:  Q6MKF5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO (Subject of Investigation/LOI)	D [auth A], E [auth A], F [auth B], G [auth B], H [auth B], I [auth C], J [auth C]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.53 Å
• R-Value Free: 0.185 
• R-Value Work: 0.164 
• R-Value Observed: 0.165 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.368	α = 90
b = 161.278	β = 90
c = 52.067	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-10-25 
Deposition Author(s): Caulton, S.G., Lovering, A.L.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	209437/Z/17/Z

Revision History  

• Version 1.0: 2023-10-25
  Type: Initial release