4NVQ

Human G9a in Complex with Inhibitor A-366


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.202 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Discovery and development of potent and selective inhibitors of histone methyltransferase g9a.

Sweis, R.F.Pliushchev, M.Brown, P.J.Guo, J.Li, F.Maag, D.Petros, A.M.Soni, N.B.Tse, C.Vedadi, M.Michaelides, M.R.Chiang, G.G.Pappano, W.N.

(2014) ACS Med Chem Lett 5: 205-209

  • DOI: 10.1021/ml400496h

  • PubMed Abstract: 
  • G9a is a histone lysine methyltransferase responsible for the methylation of histone H3 lysine 9. The discovery of A-366 arose from a unique diversity screening hit, which was optimized by incorporation of a propyl-pyrrolidine subunit to occupy the e ...

    G9a is a histone lysine methyltransferase responsible for the methylation of histone H3 lysine 9. The discovery of A-366 arose from a unique diversity screening hit, which was optimized by incorporation of a propyl-pyrrolidine subunit to occupy the enzyme lysine channel. A-366 is a potent inhibitor of G9a (IC50: 3.3 nM) with greater than 1000-fold selectivity over 21 other methyltransferases.


    Organizational Affiliation

    Discovery Research, AbbVie Inc. , 1 North Waukegan Road, North Chicago, Illinois 60064, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Histone-lysine N-methyltransferase EHMT2
A, B
285Homo sapiensMutation(s): 0 
Gene Names: EHMT2 (BAT8, C6orf30, G9A, KMT1C, NG36)
EC: 2.1.1.-, 2.1.1.43
Find proteins for Q96KQ7 (Homo sapiens)
Go to Gene View: EHMT2
Go to UniProtKB:  Q96KQ7
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
2OD
Query on 2OD

Download SDF File 
Download CCD File 
A, B
5'-methoxy-6'-[3-(pyrrolidin-1-yl)propoxy]spiro[cyclobutane-1,3'-indol]-2'-amine
C19 H27 N3 O2
BKCDJTRMYWSXMC-UHFFFAOYSA-N
 Ligand Interaction
SAH
Query on SAH

Download SDF File 
Download CCD File 
A, B
S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.202 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 56.140α = 90.00
b = 78.250β = 92.61
c = 71.440γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
BUSTERrefinement
PHASERphasing
AutoPROCdata scaling
BUSTER-TNTrefinement
JDirectordata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-01-15
    Type: Initial release
  • Version 1.1: 2014-07-16
    Type: Database references
  • Version 1.2: 2017-11-22
    Type: Refinement description