1JOC

EEA1 homodimer of C-terminal FYVE domain bound to inositol 1,3-diphosphate

Structural Biology Knowledgebase: 1JOC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.221

Literature

Macromolecules
Sequence Display for 1JOC

Classification: MEMBRANE PROTEIN

Total Structure Weight: 29220.09

Macromolecule Entities
Molecule Chains Length Organism Details
Early Endosomal Autoantigen 1 A, B 125 Homo sapiens Fragment: C-terminal domain, FYVE domain
Gene Name(s): EEA1 Gene View ZFYVE2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B PHOSPHORIC ACID MONO-(2,3,4,6-TETRAHYDROXY- 5-PHOSPHONOOXY-CYCLOHEXYL) ESTER
INOSITOL 1,3-BISPHOSPHATE (Synonym)
C6 H14 O12 P2
PUVHMWJJTITUGO-FICORBCRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
ITP N/A in BindingDB
Kd: 24000 nM  BindingMOAD
Kd: 24000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.221
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 36.53 α = 90.00
b = 85.10 β = 90.00
c = 88.04 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-27
  • Released Date: 2001-12-28
  • Deposition author(s): Dumas, J.J., Merithew, E., Rajamani, D., Hayes, S., Lawe, D., Corvera, S., Lambright, D.G.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4