1JKV

Crystal Structure of Manganese Catalase from Lactobacillus plantarum comlexed with azide

Structural Biology Knowledgebase: 1JKV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.39 Å
  • R-Value Free: 0.130
  • R-Value Work: 0.104

Literature

Macromolecules
Sequence Display for 1JKV

Classification: OXIDOREDUCTASE

Total Structure Weight: 181066.52

Macromolecule Entities
Molecule Chains Length Organism Details
pseudocatalase A, B, C..., D, E, FA, B, C, D, E, F 266 Lactobacillus plantarum EC#: 1.11.1.6 IUBMB
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EDO
Query on EDO

A, B, C, D, E, F 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN3
Query on MN3

A, B, C, D, E, F MANGANESE (III) ION
Mn
MMIPFLVOWGHZQD-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
AZI
Query on AZI

A, B, C, D, E, F AZIDE ION
N3
IVRMZWNICZWHMI-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, C, D, E, F CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OH
Query on OH

A, B, C, D, E, F HYDROXIDE ION
H O
XLYOFNOQVPJJNP-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.39 Å
  • R-Value Free: 0.130
  • R-Value Work: 0.104
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 74.21 α = 90.00
b = 95.55 β = 106.18
c = 106.11 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-13
  • Released Date: 2002-07-13
  • Deposition author(s): Barynin, V.V., Whittaker, M.M., Antonyuk, S.V., Lamzin, V.S., Harrison, P.M., Artymiuk, P.J., Whittaker, J.W.

Revision History

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