4G1N

PKM2 in complex with an activator


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.211 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Small Molecule Activation of PKM2 in Cancer Cells Induces Serine Auxotrophy.

Kung, C.Hixon, J.Choe, S.Marks, K.Gross, S.Murphy, E.Delabarre, B.Cianchetta, G.Sethumadhavan, S.Wang, X.Yan, S.Gao, Y.Fang, C.Wei, W.Jiang, F.Wang, S.Qian, K.Saunders, J.Driggers, E.Woo, H.K.Kunii, K.Murray, S.Yang, H.Yen, K.Liu, W.Cantley, L.C.Vander Heiden, M.G.Su, S.M.Jin, S.Salituro, F.G.Dang, L.

(2012) Chem.Biol. 19: 1187-1198

  • DOI: 10.1016/j.chembiol.2012.07.021

  • PubMed Abstract: 
  • Proliferating tumor cells use aerobic glycolysis to support their high metabolic demands. Paradoxically, increased glycolysis is often accompanied by expression of the lower activity PKM2 isoform, effectively constraining lower glycolysis. Here, we r ...

    Proliferating tumor cells use aerobic glycolysis to support their high metabolic demands. Paradoxically, increased glycolysis is often accompanied by expression of the lower activity PKM2 isoform, effectively constraining lower glycolysis. Here, we report the discovery of PKM2 activators with a unique allosteric binding mode. Characterization of how these compounds impact cancer cells revealed an unanticipated link between glucose and amino acid metabolism. PKM2 activation resulted in a metabolic rewiring of cancer cells manifested by a profound dependency on the nonessential amino acid serine for continued cell proliferation. Induction of serine auxotrophy by PKM2 activation was accompanied by reduced carbon flow into the serine biosynthetic pathway and increased expression of high affinity serine transporters. These data support the hypothesis that PKM2 expression confers metabolic flexibility to cancer cells that allows adaptation to nutrient stress.


    Organizational Affiliation

    Agios Pharmaceuticals, 38 Sidney Street, Cambridge, MA 02139, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pyruvate kinase isozymes M1/M2
A, B, C, D
518Homo sapiensGene Names: PKM (OIP3, PK2, PK3, PKM2)
EC: 2.7.1.40
Find proteins for P14618 (Homo sapiens)
Go to Gene View: PKM
Go to UniProtKB:  P14618
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NZT
Query on NZT

Download SDF File 
Download CCD File 
A, D
N-(4-{[4-(pyrazin-2-yl)piperazin-1-yl]carbonyl}phenyl)quinoline-8-sulfonamide
C24 H22 N6 O3 S
BNGHGURIVRPDJB-UHFFFAOYSA-N
 Ligand Interaction
OXL
Query on OXL

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Download CCD File 
A, B, C, D
OXALATE ION
C2 O4
MUBZPKHOEPUJKR-UHFFFAOYSA-L
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, D
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.211 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 168.118α = 90.00
b = 94.141β = 99.39
c = 146.149γ = 90.00
Software Package:
Software NamePurpose
PHASESphasing
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
REFMACrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-10-10
    Type: Initial release