4GDL

Crystal Structure of Human Atg12~Atg5 Conjugate in Complex with an N-terminal Fragment of Atg16L1

Structural Biology Knowledgebase: 4GDL SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.88 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.215

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4GDL

Classification: protein binding

Total Structure Weight: 47452.07

Macromolecule Entities
Molecule Chains Length Organism Details
Ubiquitin-like protein ATG12 A 91 Homo sapiens Gene Name(s): ATG12 Gene View APG12 APG12L
Autophagy protein 5 B 275 Homo sapiens Gene Name(s): ATG5 Gene View APG5L ASP
Autophagy-related protein 16-1 C 36 Homo sapiens Gene Name(s): ATG16L1 Gene View APG16L UNQ9393/PRO34307

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NA
Query on NA

B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.88 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.215
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 136.60 α = 90.00
b = 58.40 β = 130.04
c = 91.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-31
  • Released Date: 2012-12-05
  • Deposition author(s): Otomo, C., Metlagel, Z., Takaesu, G., Otomo, T.

Revision History

  • 2013-01-16
    Type: Citation | Details: Citation update
  • 2013-01-02
    Type: Citation | Details: Citation update