2WBD

FRUCTOSE-1,6-BISPHOSPHATASE(D-FRUCTOSE-1,6-BISPHOSPHATE-1- PHOSPHOHYDROLASE) (E.C.3.1.3.11) COMPLEXED WITH AN AMP SITE INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb2WBD/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2009-02-26 Released: 2009-12-22 
• Deposition Author(s): Ruf, A., Joseph, C., Benz, J., Fol, B., Tetaz, T., Kitas, E., Mohr, P., Kuhn, B., Wessel, H.P., Hebeisen, P., Haap, W., Huber, W., Alvarez Sanchez, R., Paehler, A., Bernadeau, A., Gubler, M., Schott, B., Tozzo, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.277 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 

Starting Model: experimental

Literature

Sulfonylureido Thiazoles as Fructose-1,6-Bisphosphatase Inhibitors for the Treatment of Type-2 Diabetes.

Kitas, E., Mohr, P., Kuhn, B., Wessel, H.P., Hebeisen, P., Haap, W., Ruf, A., Benz, J., Joseph, C., Huber, W., Alvarez Sanchez, R., Paehler, A., Bernadeau, A., Gubler, M., Schott, B., Tozzo, E.

(2010) Bioorg Med Chem Lett 20: 594

• PubMed: 19969452 
• DOI: https://doi.org/10.1016/j.bmcl.2009.11.093
• Primary Citation of Related Structures:  
  2WBB, 2WBD


• PubMed Abstract: 
  

  Sulfonylureido thiazoles were identified from a HTS campaign and optimized through a combination of structure-activity studies, X-ray crystallography and molecular modeling to yield potent inhibitors of fructose-1,6-bisphosphatase. Compound 12 showed favorable ADME properties, for example, F=70%, and a robust 32% glucose reduction in the acute db/db mouse model for Type-2 diabetes.

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Organizational Affiliation: 

F. Hoffmann-La Roche Ltd, Discovery Research Basel, CH-4070 Basel, Switzerland. [e-mail]

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly 2  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 298 kDa 
• Atom Count: 20,175 
• Modelled Residue Count: 2,548 
• Deposited Residue Count: 2,704 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FRUCTOSE-1,6-BISPHOSPHATASE 1	A, B, C, D, E, F, G, H	338	Homo sapiens	Mutation(s): 0  EC: 3.1.3.11
UniProt & NIH Common Fund Data Resources
Find proteins for P09467 (Homo sapiens) Explore P09467  Go to UniProtKB:  P09467
PHAROS:  P09467 GTEx:  ENSG00000165140

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RO5	I [auth A], J [auth B], K [auth C], L [auth D], M [auth E], N [auth F], O [auth G], P [auth H]	N-[(5-bromo-1,3-thiazol-2-yl)carbamoyl]-3-ethylbenzenesulfonamide C12 H12 Br N3 O3 S2 CDARLLLKPJHKBU-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
RO5	PDBBind:  2WBD	IC50: 230 (nM) from 1 assay(s)
	BindingDB:  2WBD	IC50: min: 100, max: 230 (nM) from 2 assay(s)
		EC50: 3.20e+4 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.277 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.842	α = 90
b = 285.402	β = 97.57
c = 83.552	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-12-22 
Deposition Author(s): Ruf, A., Joseph, C., Benz, J., Fol, B., Tetaz, T., Kitas, E., Mohr, P., Kuhn, B., Wessel, H.P., Hebeisen, P., Haap, W., Huber, W., Alvarez Sanchez, R., Paehler, A., Bernadeau, A., Gubler, M., Schott, B., Tozzo, E.

Revision History  

• Version 1.0: 2009-12-22
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description