6MDB

Non-receptor Protein Tyrosine Phosphatase SHP2 in Complex with Allosteric Inhibitor Pyrazolo-pyrimidinone 5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

6-Amino-3-methylpyrimidinones as Potent, Selective, and Orally Efficacious SHP2 Inhibitors.

Sarver, P.Acker, M.Bagdanoff, J.T.Chen, Z.Chen, Y.N.Chan, H.Firestone, B.Fodor, M.Fortanet, J.Hao, H.Hentemann, M.Kato, M.Koenig, R.LaBonte, L.R.Liu, G.Liu, S.Liu, C.McNeill, E.Mohseni, M.Sendzik, M.Stams, T.Spence, S.Tamez, V.Tichkule, R.Towler, C.Wang, H.Wang, P.Williams, S.L.Yu, B.LaMarche, M.J.

(2019) J. Med. Chem. 62: 1793-1802


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tyrosine-protein phosphatase non-receptor type 11
A, B
526Homo sapiensMutation(s): 0 
Gene Names: PTPN11 (PTP2C, SHPTP2)
EC: 3.1.3.48
Find proteins for Q06124 (Homo sapiens)
Go to Gene View: PTPN11
Go to UniProtKB:  Q06124
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
JE4
Query on JE4

Download SDF File 
Download CCD File 
A, B
6-(4-amino-4-methylpiperidin-1-yl)-3-(2,3-dichlorophenyl)-5-methyl-1,5-dihydro-4H-pyrazolo[3,4-d]pyrimidin-4-one
C18 H20 Cl2 N6 O
MSUDNEADKNPNRJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 46.270α = 90.00
b = 213.520β = 96.43
c = 55.760γ = 90.00
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
BUSTERphasing
AutoPROCdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2018-09-04 
  • Released Date: 2019-02-13 
  • Deposition Author(s): Fodor, M., Stams, T.

Revision History 

  • Version 1.0: 2019-02-13
    Type: Initial release
  • Version 1.1: 2019-03-13
    Type: Data collection, Database references