4FUA | pdb_00004fua

L-FUCULOSE-1-PHOSPHATE ALDOLASE COMPLEX WITH PGH

• PDB DOI: https://doi.org/10.2210/pdb4FUA/pdb

• Classification: LYASE (ALDEHYDE)
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1996-02-14 Released: 1996-10-14 
• Deposition Author(s): Dreyer, M.K., Schulz, G.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.43 Å
• R-Value Work: 
  0.185 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Literature

Catalytic mechanism of the metal-dependent fuculose aldolase from Escherichia coli as derived from the structure.

Dreyer, M.K., Schulz, G.E.

(1996) J Mol Biology 259: 458-466

• PubMed: 8676381 
• DOI: https://doi.org/10.1006/jmbi.1996.0332
• Primary Citation of Related Structures:  
  3FUA, 4FUA


• PubMed Abstract: 
  

  The structure of L-fuculose-1-phosphate aldolase in a cubic crystal form has been determined with and without the inhibitor phosphoglycolohydroxamate at 2.4 and 2.7 angstrom (1 angstrom = 0.1 nm) resolution, respectively. This inhibitor mimics the enediolate transition state of the substrate moiety dihydroxyacetone phosphate. The structures showed that dihydroxyacetone phosphate ligates the zinc ion of this metal-dependent class II aldolase with its hydroxyl and keto oxygen atoms, shifting Glu73 away from the zinc coordination sphere to a non-polar environment. At this position Glu73 accepts a proton in the initial reaction step, producing the enediolate which is then stabilized by the zinc ion. The other substrate moiety L-lactaldehyde was modeled, because no binding structure is yet available.

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Organizational Affiliation: 

Institut für Organische Chemie und Biochemie, Albert-Ludwigs-Universität, Freiburg im Breisgau, Germany.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly 2  

Global Symmetry: Octahedral - O  (Explore in 3D)
Global Stoichiometry: Homo 24-mer - A24 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 24.22 kDa 
• Atom Count: 1,677 
• Modelled Residue Count: 206 
• Deposited Residue Count: 215 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
L-FUCULOSE-1-PHOSPHATE ALDOLASE	A	215	Escherichia coli	Mutation(s): 0  EC: 4.1.2.17
UniProt
Find proteins for P0AB87 (Escherichia coli (strain K12)) Explore P0AB87  Go to UniProtKB:  P0AB87

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGH	E [auth A]	PHOSPHOGLYCOLOHYDROXAMIC ACID C2 H6 N O6 P BAXHHWZKQZIJID-UHFFFAOYSA-N
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
BME	D [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.43 Å
• R-Value Work:  0.185 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: F 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 183.6	α = 90
b = 183.6	β = 90
c = 183.6	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
XDS	data reduction
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1996-10-14 
Deposition Author(s): Dreyer, M.K., Schulz, G.E.

Revision History  

• Version 1.0: 1996-10-14
  Type: Initial release
  
• Version 1.1: 2008-03-25
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 2.0: 2024-06-05
  Changes: Atomic model, Data collection, Database references, Derived calculations, Other