4X8C

Crystal structure of human peptidylarginine deiminase type4 (PAD4) in complex with GSK147


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.195

Literature

Macromolecules
Sequence Display for 4X8C

Classification: Hydrolase / Hydrolase Inhibitor

Total Structure Weight: 75472.55

Macromolecule Entities
Molecule Chains Length Organism Details
Protein-arginine deiminase type-4 A 671 Homo sapiens EC#: 3.5.3.15 IUBMB
Mutation: C645A
Gene Name(s): PADI4 Gene View PAD4 PADI5 PDI5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
3YZ
Query on 3YZ

A [(3S,4R)-3-amino-4-hydroxypiperidin-1-yl]{2- [1-(cyclopropylmethyl)-1H-pyrrolo[2,3-b]pyridin- 2-yl]-7-methoxy-1-methyl-1H-benzimidazol- 5-yl}methanone
C26 H30 N6 O3
SHBUAYSOPVZNDD-GHTZIAJQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.195
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 145.50 α = 90.00
b = 60.42 β = 123.13
c = 113.31 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-12-10
  • Released Date: 2015-01-28
  • Deposition author(s): Lewis, H.D., Bax, B.D., Chung, C.-W., Polyakova, O., Thorpe, J.

Revision History

  • Version 1_0: 2015-01-28

    Type: Initial release

  • Version 1_1: 2015-02-11

    Type: Database references

  • Version 1_2: 2015-02-25

    Type: Database references