4WJM

Crystal structure of Fructokinase from Brucella abortus 2308 with bound AMPPNP

• PDB DOI: https://doi.org/10.2210/pdb4WJM/pdb

• Classification: TRANSFERASE
• Organism(s): Brucella abortus 2308
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-10-01 Released: 2014-10-22 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.195 
• R-Value Work: 0.170 
• R-Value Observed: 0.171 

Literature

Crystal structure of Fructokinase from Brucella abortus 2308 with bound AMPPNP

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

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 34.38 kDa 
• Atom Count: 2,748 
• Modelled Residue Count: 312 
• Deposited Residue Count: 312 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribokinase:Carbohydrate kinase, PfkB	A	312	Brucella abortus 2308	Mutation(s): 0  Gene Names: cscK, BAB1_0112 EC: 2.7.1.4
UniProt
Find proteins for Q2YNY7 (Brucella abortus (strain 2308)) Explore Q2YNY7  Go to UniProtKB:  Q2YNY7

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP	B [auth A]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N
MLA	F [auth A]	MALONIC ACID C3 H4 O4 OFOBLEOULBTSOW-UHFFFAOYSA-N
EDO	D [auth A], E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.195 
• R-Value Work: 0.170 
• R-Value Observed: 0.171 
• Space Group: P 4₂ 2₁ 2
• Diffraction Data: https://doi.org/10.18430/M34WJM

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.89	α = 90
b = 109.89	β = 90
c = 58.1	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2014-10-22 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2014-10-22
  Type: Initial release
  
• Version 1.1: 2015-04-29
  Changes: Non-polymer description
• Version 1.2: 2017-09-06
  Changes: Author supporting evidence, Derived calculations, Other, Source and taxonomy, Structure summary
• Version 1.3: 2017-11-22
  Changes: Refinement description
• Version 1.4: 2019-12-11
  Changes: Author supporting evidence
• Version 1.5: 2023-12-27
  Changes: Data collection, Database references, Refinement description