5FF7

Tagatose-1,6-bisphosphate aldolase from Streptococcus pyogenes in complex with DHAP and G3P

• PDB DOI: https://doi.org/10.2210/pdb5FF7/pdb

• Classification: LYASE
• Organism(s): Streptococcus pyogenes serotype M1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-12-18 Released: 2017-02-15 
• Deposition Author(s): Low-Kam, C., Liotard, B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.208 
• R-Value Work: 0.170 
• R-Value Observed: 0.170 

Literature

NON-STEREOSPECIFIC SUBSTRATE CLEAVAGE BY TAGATOSE-BISPHOSPHATE CLASS I ALDOLASE

Low-Kam, C., Liotard, B., Sygusch, J.

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.

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: 147.75 kDa 
• Atom Count: 11,435 
• Modelled Residue Count: 1,301 
• Deposited Residue Count: 1,308 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tagatose 1,6-diphosphate aldolase 2	A, B, C, D	327	Streptococcus pyogenes serotype M1	Mutation(s): 0  Gene Names: lacD2, lacD.2, SPy_1919, M5005_Spy1635 EC: 4.1.2.40
UniProt
Find proteins for P63705 (Streptococcus pyogenes serotype M1) Explore P63705  Go to UniProtKB:  P63705

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G3P	E [auth A], J [auth B], L [auth C], O [auth D]	SN-GLYCEROL-3-PHOSPHATE C3 H9 O6 P AWUCVROLDVIAJX-GSVOUGTGSA-N
G3H	F [auth A], M [auth C]	GLYCERALDEHYDE-3-PHOSPHATE C3 H7 O6 P LXJXRIRHZLFYRP-VKHMYHEASA-N
CA	G [auth A], H [auth A], I [auth A], K [auth B], N [auth C], P [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.208 
• R-Value Work: 0.170 
• R-Value Observed: 0.170 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.081	α = 90
b = 108.19	β = 90
c = 238.04	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-02-15 
Deposition Author(s): Low-Kam, C., Liotard, B.

Revision History  

• Version 1.0: 2017-02-15
  Type: Initial release
  
• Version 1.1: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description