3F5Q | pdb_00003f5q

CRYSTAL STRUCTURE OF putative short chain dehydrogenase from Escherichia coli CFT073

• PDB DOI: https://doi.org/10.2210/pdb3F5Q/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Escherichia coli O6
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-11-04 Released: 2009-01-13 
• Deposition Author(s): Malashkevich, V.N., Toro, R., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 
  0.215 (Depositor), 0.226 (DCC) 
• R-Value Work: 
  0.171 (Depositor), 0.182 (DCC) 
• R-Value Observed: 
  0.173 (Depositor) 

Literature

Crystal structure of an uncharacterized protein

Malashkevich, V.N., Toro, R., Sauder, J.M., Burley, S.K., Almo, S.C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 58.36 kDa 
• Atom Count: 3,959 
• Modeled Residue Count: 457 
• Deposited Residue Count: 524 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
dehydrogenase	A, B	262	Escherichia coli O6	Mutation(s): 0  Gene Names: AAN80202.1, c1736, yciK EC: 1
UniProt
Find proteins for A0A0H2V6Y9 (Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)) Explore A0A0H2V6Y9  Go to UniProtKB:  A0A0H2V6Y9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free:  0.215 (Depositor), 0.226 (DCC) 
• R-Value Work:  0.171 (Depositor), 0.182 (DCC) 
• R-Value Observed: 0.173 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.412	α = 100.29
b = 48.011	β = 102.67
c = 65.232	γ = 105.26

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHELX	phasing
RESOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
CBASS	data collection
SHELXD	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-01-13 
Deposition Author(s): Malashkevich, V.N., Toro, R., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2009-01-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Refinement description, Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-10
  Changes: Database references, Structure summary
• Version 1.5: 2023-12-27
  Changes: Data collection, Database references