3TU9

Crystal structure of rabbit muscle aldolase bound with 5-O-methyl mannitol 1,6-phosphate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.156 
  • R-Value Observed: 0.160 

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Mannitol Bis-phosphate Based Inhibitors of Fructose 1,6-Bisphosphate Aldolases.

Mabiala-Bassiloua, C.G.Arthus-Cartier, G.Hannaert, V.Therisod, H.Sygusch, J.Therisod, M.

(2011) ACS Med Chem Lett 2: 804-808

  • DOI: 10.1021/ml200129s
  • Primary Citation of Related Structures:  
    3TU9

  • PubMed Abstract: 
  • Several 5-O-alkyl- and 5-C-alkyl-mannitol bis-phosphates were synthesized and comparatively assayed as inhibitors of fructose bis-phosphate aldolases (Fbas) from rabbit muscle (taken as surrogate model of the human enzyme) and from Trypanosoma brucei. A limited selectivity was found in several instances ...

    Several 5-O-alkyl- and 5-C-alkyl-mannitol bis-phosphates were synthesized and comparatively assayed as inhibitors of fructose bis-phosphate aldolases (Fbas) from rabbit muscle (taken as surrogate model of the human enzyme) and from Trypanosoma brucei. A limited selectivity was found in several instances. Crystallographic studies confirm that the 5-O-methyl derivative binds competitively with substrate and the 5-O-methyl moiety penetrating deeper into a shallow hydrophobic pocket at the active site. This observation can lead to the preparation of selective competitive or irreversible inhibitors of the parasite Fba.


    Organizational Affiliation

    ECBB, ICMMO (UMR 8182), LabEx LERMIT, Université Paris-Sud , UMR 8182, F-91405 Orsay, France.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fructose-bisphosphate aldolase AA, B, C, D363Oryctolagus cuniculusMutation(s): 0 
Gene Names: ALDOA
EC: 4.1.2.13
UniProt
Find proteins for P00883 (Oryctolagus cuniculus)
Explore P00883 
Go to UniProtKB:  P00883
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5MM (Subject of Investigation/LOI)
Query on 5MM

Download Ideal Coordinates CCD File 
E [auth A], F [auth B], G [auth C], H [auth D]2-O-methyl-1,6-di-O-phosphono-D-mannitol
C7 H18 O12 P2
QXWUAOXRWVSNDB-DBRKOABJSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
5MM BindingDB:  3TU9 IC50: 7500 (nM) from 1 assay(s)
PDBBind:  3TU9 IC50: 7500 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.156 
  • R-Value Observed: 0.160 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 82.669α = 90
b = 103.056β = 98.34
c = 84.458γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHENIXmodel building
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-10-12
    Type: Initial release
  • Version 1.1: 2018-04-18
    Changes: Data collection, Database references