5EY7 | pdb_00005ey7

Crystal structure of Fructokinase from Vibrio cholerae O395 in apo form

• PDB DOI: https://doi.org/10.2210/pdb5EY7/pdb

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


• Deposited: 2015-11-24 Released: 2016-11-30 
• Deposition Author(s): Paul, R., Nath, S., Sen, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.46 Å
• R-Value Free: 
  0.242 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.217 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Fructokinase from Vibrio cholerae O395 in apo form

Paul, R., Nath, S., Sen, U.

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: 70.01 kDa 
• Atom Count: 4,627 
• Modeled Residue Count: 598 
• Deposited Residue Count: 646 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructokinase	A, B	323	Vibrio cholerae O395	Mutation(s): 0  Gene Names: cscK, VC0395_0600 EC: 2.7.1.4
UniProt
Find proteins for A0A0H3AER7 (Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)) Explore A0A0H3AER7  Go to UniProtKB:  A0A0H3AER7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.46 Å
• R-Value Free:  0.242 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.217 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.116	α = 90
b = 99.858	β = 90
c = 61.548	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
AUTOMAR	data reduction
AUTOMAR	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-11-30 
Deposition Author(s): Paul, R., Nath, S., Sen, U.

Revision History  

• Version 1.0: 2016-11-30
  Type: Initial release
  
• Version 1.1: 2017-08-16
  Changes: Database references
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description