4KA7

Structure of Organellar OligoPeptidase (E572Q) in complex with an endogenous substrate

Structural Biology Knowledgebase: 4KA7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.179

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KA7

Classification: HYDROLASE / HYDROLASE SUBSTRATE

Total Structure Weight: 80972.14

Macromolecule Entities
Molecule Chains Length Organism Details
Oligopeptidase A A 714 Arabidopsis thaliana EC#: 3.4.24.70 IUBMB
Mutation: E572Q
Gene Name(s): OOP TOP1 Gene View At5g65620 K21L13.14
short endogenous peptide substrate C 4 synthetic

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

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
GOL
Query on GOL

A GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.179
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.47 α = 90.00
b = 100.77 β = 90.00
c = 132.48 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