5C91

NEDD4 HECT with covalently bound indole-based inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.44 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.248 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A Small Molecule That Switches a Ubiquitin Ligase From a Processive to a Distributive Enzymatic Mechanism.

Kathman, S.G.Span, I.Smith, A.T.Xu, Z.Zhan, J.Rosenzweig, A.C.Statsyuk, A.V.

(2015) J. Am. Chem. Soc. 137: 12442-12445


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
E3 ubiquitin-protein ligase NEDD4
A
375Homo sapiensMutation(s): 0 
Gene Names: NEDD4 (KIAA0093, NEDD4-1)
EC: 2.3.2.26
Find proteins for P46934 (Homo sapiens)
Go to Gene View: NEDD4
Go to UniProtKB:  P46934
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
4YU
Query on 4YU

Download SDF File 
Download CCD File 
A
methyl (2E)-4-{[(5-methoxy-1,2-dimethyl-1H-indol-3-yl)carbonyl]amino}but-2-enoate
C17 H20 N2 O4
HNSHUPGGAGLETK-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.44 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.248 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 175.200α = 90.00
b = 38.730β = 93.13
c = 60.360γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-09-30
    Type: Initial release
  • Version 1.1: 2018-04-25
    Type: Data collection, Database references, Derived calculations