3O4H

Structure and Catalysis of Acylaminoacyl Peptidase

Structural Biology Knowledgebase: 3O4H SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.203

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3O4H

Classification: HYDROLASE

Total Structure Weight: 252767.09

Macromolecule Entities
Molecule Chains Length Organism Details
Acylamino-acid-releasing enzyme A, B, C, D 582 Aeropyrum pernix EC#: 3.4.19.1 IUBMB
Mutation: D524A
Gene Name(s): APE_1547.1

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

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.203
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.40 α = 105.69
b = 97.98 β = 103.52
c = 98.80 γ = 100.36

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-27
  • Released Date: 2010-11-17
  • Deposition author(s): Harmat, V., Domokos, K., Menyhard, D.K., Pallo, A., Szeltner, Z., Szamosi, I., Beke-Somfai, T., Naray-Szabo, G., Polgar, L.

Revision History

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