4XK2 | pdb_00004xk2

Crystal structure of aldo-keto reductase from Polaromonas sp. JS666

• PDB DOI: https://doi.org/10.2210/pdb4XK2/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Polaromonas sp. JS666
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-01-09 Released: 2015-01-21 
• Deposition Author(s): Gasiorowska, O.A., Handing, K.B., Shabalin, I.G., Sroka, P., Hillerich, B.S., Bonanno, J., Seidel, R., Almo, S.C., Minor, W., New York Structural Genomics Research Consortium (NYSGRC)
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.185 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of aldo-keto reductase from Polaromonas sp. JS666

Gasiorowska, O.A., Handing, K.B., Shabalin, I.G., Sroka, P., Minor, W.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

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

Biological Assembly 2  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

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

Macromolecule Content 

• Total Structure Weight: 112.48 kDa 
• Atom Count: 8,217 
• Modeled Residue Count: 942 
• Deposited Residue Count: 1,032 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aldo/keto reductase	A, B, C	344	Polaromonas sp. JS666	Mutation(s): 0  Gene Names: Bpro_4249

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	D [auth A], E [auth A], G [auth B], I [auth C], J [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA	F [auth A], H [auth B], K [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.185 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M37597

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.11	α = 90
b = 105.11	β = 90
c = 479.569	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing
MOLREP	phasing
Coot	model building
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-01-21 
Deposition Author(s): Gasiorowska, O.A., Handing, K.B., Shabalin, I.G., Sroka, P., Hillerich, B.S., Bonanno, J., Seidel, R., Almo, S.C., Minor, W., New York Structural Genomics Research Consortium (NYSGRC)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	U54-GM094662

Revision History  

• Version 1.0: 2015-01-21
  Type: Initial release
  
• Version 1.1: 2017-09-20
  Changes: Advisory, Author supporting evidence, Derived calculations, Refinement description, Source and taxonomy, Structure summary
• Version 1.2: 2020-01-01
  Changes: Author supporting evidence
• Version 1.3: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2023-09-27
  Changes: Data collection, Refinement description