5HG1

Crystal Structure of Human Hexokinase 2 with cmpd 1, a C-2-substituted glucosamine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.76 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Discovery of a Novel 2,6-Disubstituted Glucosamine Series of Potent and Selective Hexokinase 2 Inhibitors.

Lin, H.Zeng, J.Xie, R.Schulz, M.J.Tedesco, R.Qu, J.Erhard, K.F.Mack, J.F.Raha, K.Rendina, A.R.Szewczuk, L.M.Kratz, P.M.Jurewicz, A.J.Cecconie, T.Martens, S.McDevitt, P.J.Martin, J.D.Chen, S.B.Jiang, Y.Nickels, L.Schwartz, B.J.Smallwood, A.Zhao, B.Campobasso, N.Qian, Y.Briand, J.Rominger, C.M.Oleykowski, C.Hardwicke, M.A.Luengo, J.I.

(2016) Acs Med.Chem.Lett. 7: 217-222

  • DOI: 10.1021/acsmedchemlett.5b00214
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A novel series of potent and selective hexokinase 2 (HK2) inhibitors, 2,6-disubstituted glucosamines, has been identified based on HTS hits, exemplified by compound 1. Inhibitor-bound crystal structures revealed that the HK2 enzyme could adopt an "in ...

    A novel series of potent and selective hexokinase 2 (HK2) inhibitors, 2,6-disubstituted glucosamines, has been identified based on HTS hits, exemplified by compound 1. Inhibitor-bound crystal structures revealed that the HK2 enzyme could adopt an "induced-fit" conformation. The SAR study led to the identification of potent HK2 inhibitors, such as compound 34 with greater than 100-fold selectivity over HK1. Compound 25 inhibits in situ glycolysis in a UM-UC-3 bladder tumor cell line via (13)CNMR measurement of [3-(13)C]lactate produced from [1,6-(13)C2]glucose added to the cell culture.


    Organizational Affiliation

    Cancer Metabolism Chemistry; Cancer Metabolism Biology; and Platform Technology & Sciences, GlaxoSmithKline , 1250 South Collegeville Road, Collegeville, Pennsylvania 19426-0989, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hexokinase-2
A
922Homo sapiensMutation(s): 0 
Gene Names: HK2
EC: 2.7.1.1
Find proteins for P52789 (Homo sapiens)
Go to Gene View: HK2
Go to UniProtKB:  P52789
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BG6
Query on BG6

Download SDF File 
Download CCD File 
A
BETA-D-GLUCOSE-6-PHOSPHATE
C6 H13 O9 P
NBSCHQHZLSJFNQ-VFUOTHLCSA-N
 Ligand Interaction
62C
Query on 62C

Download SDF File 
Download CCD File 
A
2-deoxy-2-{[(2E)-3-(3,4-dichlorophenyl)prop-2-enoyl]amino}-alpha-D-glucopyranose
C15 H17 Cl2 N O6
ZBHWRKZTEDNOAJ-GJAUZLMESA-N
 Ligand Interaction
FLC
Query on FLC

Download SDF File 
Download CCD File 
A
CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.76 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.218 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 165.120α = 90.00
b = 165.120β = 90.00
c = 126.478γ = 120.00
Software Package:
Software NamePurpose
PHENIXphasing
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-30
    Type: Initial release