Crystal structure of Glucokinase in complex with compound 6

Experimental Data Snapshot

  • Resolution: 2.70 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.207 

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Ligand Structure Quality Assessment 

This is version 1.3 of the entry. See complete history


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

  • 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 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. Electronic address: rhinklin@arraybiopharma.com.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glucokinase448Homo sapiensMutation(s): 0 
Gene Names: GCK
UniProt & NIH Common Fund Data Resources
Find proteins for P35557 (Homo sapiens)
Explore P35557 
Go to UniProtKB:  P35557
PHAROS:  P35557
GTEx:  ENSG00000106633 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35557
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HKM (Subject of Investigation/LOI)
Query on HKM

Download Ideal Coordinates CCD File 
C [auth A]2-({2-[(4-methyl-1,3-thiazol-2-yl)amino]pyridin-3-yl}oxy)benzonitrile
C16 H12 N4 O S
Query on GLC

Download Ideal Coordinates CCD File 
B [auth A]alpha-D-glucopyranose
C6 H12 O6
Experimental Data & Validation

Experimental Data

  • 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
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Revision History  (Full details and data files)

  • 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
  • Version 1.3: 2024-03-13
    Changes: Data collection, Database references, Structure summary