2FHY

Structure of human liver FPBase complexed with a novel benzoxazole as allosteric inhibitor

• PDB DOI: https://doi.org/10.2210/pdb2FHY/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-12-27 Released: 2006-02-21 
• Deposition Author(s): Abad-Zapatero, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.95 Å
• R-Value Free: 0.276 
• R-Value Work: 0.225 
• R-Value Observed: 0.240 

Literature

Benzoxazole benzenesulfonamides are novel allosteric inhibitors of fructose-1,6-bisphosphatase with a distinct binding mode.

von Geldern, T.W., Lai, C., Gum, R.J., Daly, M., Sun, C., Fry, E.H., Abad-Zapatero, C.

(2006) Bioorg Med Chem Lett 16: 1811-1815

• PubMed: 16442285 
• DOI: https://doi.org/10.1016/j.bmcl.2006.01.015
• Primary Citation of Related Structures:  
  2FHY


• PubMed Abstract: 
  

  We have identified benzoxazole benzenesulfonamide 1 as a novel allosteric inhibitor of fructose-1,6-bisphosphatase (FBPase-1). X-ray crystallographic and biological studies of 1 indicate a distinct binding mode that recapitulates features of several previously reported FBPase-1 inhibitor classes.

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Organizational Affiliation: 

Metabolic Disease Research, GPRD, Abbott Laboratories, Abbott Park, IL 60064, USA. [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 PISA (software)

Macromolecule Content

• Total Structure Weight: 165.59 kDa 
• Atom Count: 9,796 
• Modelled Residue Count: 1,272 
• Deposited Residue Count: 1,496 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructose-1,6-bisphosphatase 1	A, B [auth D], C [auth H], D [auth L]	374	Homo sapiens	Mutation(s): 1  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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A37	F [auth A], H [auth D], J [auth H], L	2,5-DICHLORO-N-(5-CHLORO-1,3-BENZOXAZOL-2-YL)BENZENESULFONAMIDE C13 H7 Cl3 N2 O3 S JCXZHFCBNFFHRC-UHFFFAOYSA-N
MG	E [auth A], G [auth D], I [auth H], K [auth L]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
A37	PDBBind:  2FHY	Ki: 1100 (nM) from 1 assay(s)
	BindingDB:  2FHY	IC50: 3400 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.95 Å
• R-Value Free: 0.276 
• R-Value Work: 0.225 
• R-Value Observed: 0.240 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.748	α = 90
b = 109.126	β = 90
c = 190.838	γ = 90

Software Package:

Software Name	Purpose
CNX	refinement
MAR345	data collection
HKL-2000	data scaling
CNX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-02-21 
Deposition Author(s): Abad-Zapatero, C.

Revision History  

• Version 1.0: 2006-02-21
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations