5ENC

Crystal structure of the second bromodomain of Pleckstrin homology domain interacting protein (PHIP) in complex with N-(2,6-Dichlorobenzyl)acetamide (SGC - Diamond I04-1 fragment screening)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A poised fragment library enables rapid synthetic expansion yielding the first reported inhibitors of PHIP(2), an atypical bromodomain.

Cox, O.B.Krojer, T.Collins, P.Monteiro, O.Talon, R.Bradley, A.Fedorov, O.Amin, J.Marsden, B.D.Spencer, J.von Delft, F.Brennan, P.E.

(2016) Chem Sci 7: 2322-2330


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PH-interacting protein
A
131Homo sapiensMutation(s): 0 
Gene Names: PHIP (WDR11)
Find proteins for Q8WWQ0 (Homo sapiens)
Go to Gene View: PHIP
Go to UniProtKB:  Q8WWQ0
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5QD
Query on 5QD

Download SDF File 
Download CCD File 
A
~{N}-[[2,6-bis(chloranyl)phenyl]methyl]ethanamide
C9 H9 Cl2 N O
MDSIORNLJCVXLC-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: 1.59 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.203 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 60.687α = 90.00
b = 91.582β = 90.00
c = 24.033γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
Aimlessdata scaling
XDSdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-04-27
    Type: Initial release
  • Version 1.1: 2018-07-11
    Type: Data collection, Database references