6JOK

Crystal structure of PDGFRA in complex with sunitinib by soaking


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.257 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of PDGFRA in complex with sunitinib by soaking

Liang, L.Yan, X.E.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Platelet-derived growth factor receptor alpha
A
356Homo sapiensMutation(s): 0 
Gene Names: PDGFRA (PDGFR2, RHEPDGFRA)
EC: 2.7.10.1
Find proteins for P16234 (Homo sapiens)
Go to Gene View: PDGFRA
Go to UniProtKB:  P16234
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
B49
Query on B49

Download SDF File 
Download CCD File 
A
N-[2-(diethylamino)ethyl]-5-[(Z)-(5-fluoro-2-oxo-1,2-dihydro-3H-indol-3-ylidene)methyl]-2,4-dimethyl-1H-pyrrole-3-carboxamide
SUNITINIB
C22 H27 F N4 O2
WINHZLLDWRZWRT-ATVHPVEESA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.257 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 102.611α = 90.00
b = 102.611β = 90.00
c = 111.301γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data scaling
PHASERphasing
PHENIXrefinement
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina--

Revision History 

  • Version 1.0: 2020-03-25
    Type: Initial release