6CMS

Closed structure of active SHP2 mutant E76K bound to SHP099 inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.68 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Mechanism of activating mutations and allosteric drug inhibition of the phosphatase SHP2.

Padua, R.A.P.Sun, Y.Marko, I.Pitsawong, W.Stiller, J.B.Otten, R.Kern, D.

(2018) Nat Commun 9: 4507-4507


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tyrosine-protein phosphatase non-receptor type 11
A
532Homo sapiensMutation(s): 1 
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 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5OD
Query on 5OD

Download SDF File 
Download CCD File 
A
6-(4-azanyl-4-methyl-piperidin-1-yl)-3-[2,3-bis(chloranyl)phenyl]pyrazin-2-amine
SHP099
C16 H19 Cl2 N5
YGUFCDOEKKVKJK-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.68 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.205 
  • Space Group: P 2 21 21
Unit Cell:
Length (Å)Angle (°)
a = 40.715α = 90.00
b = 54.141β = 90.00
c = 218.847γ = 90.00
Software Package:
Software NamePurpose
Cootmodel building
PHENIXrefinement
PHASERphasing
Aimlessdata scaling
Blu-Icedata collection
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Brazilian National Council for Scientific and Technological DevelopmentBrazil233809/2014-7
Howard Hughes Medical InstituteUnited States--
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM100966

Revision History 

  • Version 1.0: 2018-11-14
    Type: Initial release
  • Version 1.1: 2019-02-20
    Type: Author supporting evidence, Data collection
  • Version 1.2: 2019-04-17
    Type: Author supporting evidence, Data collection