6HPX

Crystal structure of ENL (MLLT1) in complex with compound 19


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.211 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure-Based Approach toward Identification of Inhibitory Fragments for Eleven-Nineteen-Leukemia Protein (ENL).

Heidenreich, D.Moustakim, M.Schmidt, J.Merk, D.Brennan, P.E.Fedorov, O.Chaikuad, A.Knapp, S.

(2018) J.Med.Chem. 61: 10929-10934

  • DOI: 10.1021/acs.jmedchem.8b01457
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Lysine acetylation is an epigenetic mark that is principally recognized by bromodomains, and recently structurally diverse YEATS domains also emerged as readers of lysine acetyl/acylations. Here we present a crystallography-based strategy and the dis ...

    Lysine acetylation is an epigenetic mark that is principally recognized by bromodomains, and recently structurally diverse YEATS domains also emerged as readers of lysine acetyl/acylations. Here we present a crystallography-based strategy and the discovery of fragments binding to the ENL YEATS domain, a potential drug target. Crystal structures combined with synthetic efforts led to the identification of a submicromolar binder, providing first starting points for the development of chemical probes for this reader domain family.


    Organizational Affiliation

    Institute of Pharmaceutical Chemistry , Goethe-University Frankfurt , 60438 Frankfurt , Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein ENL
A
155Homo sapiensMutation(s): 0 
Gene Names: MLLT1 (ENL, LTG19, YEATS1)
Find proteins for Q03111 (Homo sapiens)
Go to Gene View: MLLT1
Go to UniProtKB:  Q03111
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GKQ
Query on GKQ

Download SDF File 
Download CCD File 
A
~{N}-[(3-chlorophenyl)methyl]-1-(2-pyrrolidin-1-ylethyl)benzimidazole-5-carboxamide
C21 H23 Cl N4 O
KDORBCZWJTXUAC-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.211 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 48.350α = 90.00
b = 48.350β = 90.00
c = 137.415γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
XDSdata reduction
PHASERphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-11-28
    Type: Initial release
  • Version 1.1: 2018-12-05
    Type: Data collection, Database references
  • Version 1.2: 2019-04-24
    Type: Data collection, Database references