3OZY

Crystal structure of enolase superfamily member from Bordetella bronchiseptica complexed with Mg and m-Xylarate

• PDB DOI:  https://doi.org/10.2210/pdb3OZY/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Bordetella bronchiseptica
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-09-27 Released: 2011-09-28 
• Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Wichelecki, D., Gerlt, J.A., Almo, S.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.172 
• R-Value Work: 0.154 
• R-Value Observed: 0.155 

Literature

Crystal structure of enolase superfamily member from Bordetella bronchiseptica complexed with Mg and m-Xylarate

Fedorov, A.A., Fedorov, E.V., Wichelecki, D., Gerlt, J.A., Almo, S.C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 85.9 kDa 
• Atom Count: 7,148 
• Modelled Residue Count: 772 
• Deposited Residue Count: 778 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative mandelate racemase	A, B	389	Bordetella bronchiseptica	Mutation(s): 0  Gene Names: BB4687
UniProt
Find proteins for A0A0H3LT39 (Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)) Explore A0A0H3LT39  Go to UniProtKB:  A0A0H3LT39

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DXL	L [auth B]	D-xylaric acid C5 H8 O7 NPTTZSYLTYJCPR-FFEAPLRNSA-N
GOL	E [auth A], F [auth A], M [auth B], N [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACY	G [auth A], H [auth A], I [auth A], O [auth B], P [auth B], Q [auth B]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N
MG	C [auth A], D [auth A], J [auth B], K [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.172 
• R-Value Work: 0.154 
• R-Value Observed: 0.155 
• Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.769	α = 90
b = 116.769	β = 90
c = 128.417	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
BALBES	phasing
PHENIX	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-09-28 
Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Wichelecki, D., Gerlt, J.A., Almo, S.C.

Revision History  

• Version 1.0: 2011-09-28
  Type: Initial release
  
• Version 1.1: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description