1TE2

Putative Phosphatase Ynic from Escherichia coli K12

• PDB DOI: https://doi.org/10.2210/pdb1TE2/pdb

• Classification: HYDROLASE
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-05-24 Released: 2004-08-03 
• Deposition Author(s): Kim, Y., Joachimiak, A., Evdokimova, E., Savchenko, A., Edwards, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 0.220 
• R-Value Work: 0.174 
• R-Value Observed: 0.179 

Literature

Crystal Structure of Putative Phosphatase Ynic from Escherichia coli K12

Kim, Y., Joachimiak, A., Evdokimova, E., Savchenko, A., Edwards, A.

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)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 50.61 kDa 
• Atom Count: 4,073 
• Modelled Residue Count: 436 
• Deposited Residue Count: 452 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2-deoxyglucose-6-P phosphatase	A, B	226	Escherichia coli K-12	Mutation(s): 0  EC: 3.1.3.18 (PDB Primary Data), 3.1.3.50 (UniProt), 3.1.3.22 (UniProt), 3.1.3.68 (UniProt), 3.1.3.23 (UniProt)
UniProt
Find proteins for P77247 (Escherichia coli (strain K12)) Explore P77247  Go to UniProtKB:  P77247

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGA	C [auth A], E [auth B]	2-PHOSPHOGLYCOLIC ACID C2 H5 O6 P ASCFNMCAHFUBCO-UHFFFAOYSA-N
CA	D [auth A], F [auth B], G [auth B], H [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 0.220 
• R-Value Work: 0.174 
• R-Value Observed: 0.179 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.591	α = 90
b = 88.447	β = 97.26
c = 48.591	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-08-03 
Deposition Author(s): Kim, Y., Joachimiak, A., Evdokimova, E., Savchenko, A., Edwards, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2004-08-03
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2015-06-17
  Changes: Database references, Source and taxonomy, Structure summary
• Version 1.4: 2015-06-24
  Changes: Source and taxonomy
• Version 1.5: 2024-07-10
  Changes: Advisory, Data collection, Database references, Derived calculations
• Version 1.6: 2024-10-16
  Changes: Structure summary