5KZ8

Mark2 complex with 7-[(1S)-1-(4-fluorophenyl)ethyl]-5,5-dimethyl-2-(3-pyridylamino)pyrrolo[2,3-d]pyrimidin-6-one


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.219 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structure guided design of a series of selective pyrrolopyrimidinone MARK inhibitors.

Katz, J.D.Haidle, A.Childers, K.K.Zabierek, A.A.Jewell, J.P.Hou, Y.Altman, M.D.Szewczak, A.Chen, D.Harsch, A.Hayashi, M.Warren, L.Hutton, M.Nuthall, H.Su, H.P.Munshi, S.Stanton, M.G.Davies, I.W.Munoz, B.Northrup, A.

(2017) Bioorg. Med. Chem. Lett. 27: 114-120

  • DOI: 10.1016/j.bmcl.2016.08.068
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The initial structure activity relationships around an isoindoline uHTS hit will be described. Information gleaned from ligand co-crystal structures allowed for rapid refinements in both MARK potency and kinase selectivity. These efforts allowed for ...

    The initial structure activity relationships around an isoindoline uHTS hit will be described. Information gleaned from ligand co-crystal structures allowed for rapid refinements in both MARK potency and kinase selectivity. These efforts allowed for the identification of a compound with properties suitable for use as an in vitro tool compound for validation studies on MARK as a viable target for Alzheimer's disease.


    Organizational Affiliation

    Department of Chemistry, Merck & Co., Inc., 33 Avenue Louis Pasteur, Boston, MA 02115, USA.,Department of Structural Chemistry, Merck & Co., Inc., 33 Avenue Louis Pasteur, Boston, MA 02115, USA.,Department of Structural Chemistry, Merck & Co., Inc., 770 Sumneytown Pike, West Point, PA 19486, USA.,Department of In Vitro Sciences, Merck & Co., Inc., 33 Avenue Louis Pasteur, Boston, MA 02115, USA.,Department of Chemistry, Merck & Co., Inc., 33 Avenue Louis Pasteur, Boston, MA 02115, USA. Electronic address: jason_katz2@merck.com.,Department of Neuroscience, Merck & Co., Inc., 33 Avenue Louis Pasteur, Boston, MA 02115, USA.,Department of Drug Metabolism, Merck & Co., Inc., 33 Avenue Louis Pasteur, Boston, MA 02115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Serine/threonine-protein kinase MARK2
A, B
346Homo sapiensMutation(s): 0 
Gene Names: MARK2 (EMK1)
EC: 2.7.11.1, 2.7.11.26
Find proteins for Q7KZI7 (Homo sapiens)
Go to Gene View: MARK2
Go to UniProtKB:  Q7KZI7
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
6Z5
Query on 6Z5

Download SDF File 
Download CCD File 
A, B
5,5-dimethyl-7-[(1~{S})-4-oxidanyl-1~{H}-inden-1-yl]-2-phenylazanyl-pyrrolo[2,3-d]pyrimidin-6-one
C23 H20 N4 O2
XYYZSCWSVMFLOM-SFHVURJKSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.219 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 120.416α = 90.00
b = 120.416β = 90.00
c = 99.457γ = 120.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data collection
BUSTERphasing
HKL-2000data scaling
BUSTER-TNTrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-07-23 
  • Released Date: 2017-05-31 
  • Deposition Author(s): Su, H.P., Munshi, S.K.

Revision History 

  • Version 1.0: 2017-05-31
    Type: Initial release