4KA8

Structure of Organellar OligoPeptidase

Structural Biology Knowledgebase: 4KA8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KA8

Classification: HYDROLASE

Total Structure Weight: 80762.84

Macromolecule Entities
Molecule Chains Length Organism Details
Oligopeptidase A A 714 Arabidopsis thaliana EC#: 3.4.24.70 IUBMB
Gene Name(s): OOP TOP1 Gene View At5g65620 K21L13.14
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.191
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 71.82 α = 90.00
b = 101.34 β = 90.00
c = 132.91 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-04-22
  • Released Date: 2013-09-18
  • Deposition author(s): Berntsson, R.P.-A., Kmiec, B., Teixeira, P.F., Svensson, L.M., Bakali, A., Glaser, E., Stenmark, P.

Revision History

No revisions since initial release