6E0E

Crystal structure of Glucokinase in complex with compound 6

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.207 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Discovery and preclinical development of AR453588 as an anti-diabetic glucokinase activator.

Hinklin, R.J., Baer, B.R., Boyd, S.A., Chicarelli, M.D., Condroski, K.R., DeWolf Jr., W.E., Fischer, J., Frank, M., Hingorani, G.P., Lee, P.A., Neitzel, N.A., Pratt, S.A., Singh, A., Sullivan, F.X., Turner, T., Voegtli, W.C., Wallace, E.M., Williams, L., Aicher, T.D.

(2020) Bioorg Med Chem 28: 115232-115232

  • DOI: 10.1016/j.bmc.2019.115232
  • Primary Citation of Related Structures:  
    6E0I, 6E0E

  • PubMed Abstract: 

    • Glucose flux through glucokinase (GK) controls insulin release from the pancreas in response to high levels of glucose. Flux through GK is also responsible for reducing hepatic glucose output. Since many individuals with type 2 diabetes appear to have an ...

    Glucose flux through glucokinase (GK) controls insulin release from the pancreas in response to high levels of glucose. Flux through GK is also responsible for reducing hepatic glucose output. Since many individuals with type 2 diabetes appear to have an inadequacy or defect in one or both of these processes, identifying compounds that can activate GK could provide a therapeutic benefit. Herein we report the further structure activity studies of a novel series of glucokinase activators (GKA). These studies led to the identification of pyridine 72 as a potent GKA that lowered post-prandial glucose in normal C57BL/6J mice, and after 14d dosing in ob/ob mice.

    Organizational Affiliation: 

    Array BioPharma Inc., 3200 Walnut St., Boulder, CO 80301, United States.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Glucokinase A448Homo sapiensMutation(s): 0 
Gene Names: GCK
EC: 2.7.1.2 (PDB Primary Data), 2.7.1.1 (UniProt)
Find proteins for P35557 (Homo sapiens)
Explore P35557 
Go to UniProtKB:  P35557
NIH Common Fund Data Resources
PHAROS:  P35557
GTEx:  ENSG00000106633
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HKM
Query on HKM
Download Ideal Coordinates CCD File 
A
2-({2-[(4-methyl-1,3-thiazol-2-yl)amino]pyridin-3-yl}oxy)benzonitrile
C16 H12 N4 O S
KPJJEXKLZAXHEE-UHFFFAOYSA-N		 Ligand Interaction
GLC
Query on GLC
Download Ideal Coordinates CCD File 
A
alpha-D-glucopyranose
C6 H12 O6
WQZGKKKJIJFFOK-DVKNGEFBSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.207 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.57α = 90
b = 79.57β = 90
c = 320.16γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
REFMACphasing

Structure Validation

View Full Validation Report


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-07-10
    Type: Initial release
  • Version 1.1: 2020-01-22
    Changes: Data collection, Database references
  • Version 1.2: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary