3E58

Crystal structure of putative beta-phosphoglucomutase from Streptococcus thermophilus

• PDB DOI: https://doi.org/10.2210/pdb3E58/pdb

• Classification: ISOMERASE
• Organism(s): Streptococcus thermophilus LMG 18311
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2008-08-13 Released: 2008-08-26 
• Deposition Author(s): Chang, C., Tesar, C., Souvong, K., Cobb, G., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free: 0.199 
• R-Value Work: 0.170 
• R-Value Observed: 0.171 

Literature

Crystal structure of putative beta-phosphoglucomutase from Streptococcus thermophilus

Chang, C., Tesar, C., Souvong, K., Cobb, G., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 49.14 kDa 
• Atom Count: 3,822 
• Modelled Residue Count: 419 
• Deposited Residue Count: 428 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative Beta-phosphoglucomutase	A, B	214	Streptococcus thermophilus LMG 18311	Mutation(s): 3  Gene Names: stu0379
UniProt
Find proteins for Q5M5S4 (Streptococcus thermophilus (strain ATCC BAA-250 / LMG 18311)) Explore Q5M5S4  Go to UniProtKB:  Q5M5S4

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	E [auth A], G [auth B], H [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-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: 1.86 Å
• R-Value Free: 0.199 
• R-Value Work: 0.170 
• R-Value Observed: 0.171 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.784	α = 90
b = 88.784	β = 90
c = 118.846	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-08-26 
Deposition Author(s): Chang, C., Tesar, C., Souvong, K., Cobb, G., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2008-08-26
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2021-10-20
  Changes: Database references, Derived calculations
• Version 1.3: 2024-10-30
  Changes: Data collection, Structure summary