6NQ4 | pdb_00006nq4

Crystal structure of a Hydrolase, haloacid dehalogenase-like family from Brucella suis 1330

• PDB DOI: https://doi.org/10.2210/pdb6NQ4/pdb

• Classification: HYDROLASE
• Organism(s): Brucella suis 1330
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2019-01-19 Released: 2019-11-27 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 
  0.183 (Depositor), 0.186 (DCC) 
• R-Value Work: 
  0.141 (Depositor), 0.142 (DCC) 
• R-Value Observed: 
  0.142 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of a Hydrolase, haloacid dehalogenase-like family from Brucella suis 1330

Abendroth, J., Dranow, D.M., Sankaran, B., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

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

Macromolecule Content 

• Total Structure Weight: 66.97 kDa 
• Atom Count: 4,807 
• Modeled Residue Count: 532 
• Deposited Residue Count: 608 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HAD superfamily hydrolase	A, B	304	Brucella suis 1330	Mutation(s): 0  Gene Names: BS1330_II0196
UniProt
Find proteins for A0A0H3GA96 (Brucella suis biovar 1 (strain 1330)) Explore A0A0H3GA96  Go to UniProtKB:  A0A0H3GA96

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	G [auth A], K [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
EDO	C [auth A], D [auth A], E [auth A], F [auth A], I [auth B], J [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
NA	H [auth A], L [auth B], M [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free:  0.183 (Depositor), 0.186 (DCC) 
• R-Value Work:  0.141 (Depositor), 0.142 (DCC) 
• R-Value Observed: 0.142 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.43	α = 90
b = 60.12	β = 104.28
c = 86.84	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
Arcimboldo	phasing
ARP/wARP	model building
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-11-27 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2019-11-27
  Type: Initial release
  
• Version 1.1: 2024-03-13
  Changes: Data collection, Database references, Derived calculations
• Version 1.2: 2024-04-03
  Changes: Refinement description