3KC1

Crystal structure of human liver FBPase in complex with tricyclic inhibitor 19a


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.228 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure-based drug design of tricyclic 8H-indeno[1,2-d][1,3]thiazoles as potent FBPase inhibitors.

Tsukada, T.Takahashi, M.Takemoto, T.Kanno, O.Yamane, T.Kawamura, S.Nishi, T.

(2010) Bioorg.Med.Chem.Lett. 20: 1004-1007

  • DOI: 10.1016/j.bmcl.2009.12.056
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • With the goal of improving metabolic stability and further enhancing FBPase inhibitory activity, a series of tricyclic 8H-indeno[1,2-d][1,3]thiazoles was designed and synthesized with the aid of structure-based drug design. Extensive SAR studies led ...

    With the goal of improving metabolic stability and further enhancing FBPase inhibitory activity, a series of tricyclic 8H-indeno[1,2-d][1,3]thiazoles was designed and synthesized with the aid of structure-based drug design. Extensive SAR studies led to the discovery of 19a with an IC(50) value of 1nM against human FBPase. X-ray crystallographic studies revealed that high affinity of 19a was due to the hydrophobic interaction arising from better shape complementarity and to the hydrogen bonding network involving the side chain on the tricyclic scaffold.


    Organizational Affiliation

    Medicinal Chemistry Research Laboratories I, Daiichi Sankyo Co, Ltd, 1-2-58 Hiromachi, Shinagawa-ku, Tokyo 140-8710, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Fructose-1,6-bisphosphatase 1
A, B, C, D
337Homo sapiensMutation(s): 0 
Gene Names: FBP1 (FBP)
EC: 3.1.3.11
Find proteins for P09467 (Homo sapiens)
Go to Gene View: FBP1
Go to UniProtKB:  P09467
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
2T6
Query on 2T6

Download SDF File 
Download CCD File 
A, B, C, D
{[(7-carbamoyl-8H-indeno[1,2-d][1,3]thiazol-4-yl)oxy]methyl}phosphonic acid
C12 H11 N2 O5 P S
APAVSBDDVLUPIF-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
2T6IC50: 1 nM (99) BINDINGDB
2T6IC50: 1 nM BINDINGMOAD
2T6IC50: 1 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.228 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 67.358α = 90.00
b = 83.213β = 90.00
c = 278.147γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
CNXphasing
HKL-2000data reduction
CrystalCleardata collection
DENZOdata reduction
HKL-2000data scaling
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
CNXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-02-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description