1JKV

Crystal Structure of Manganese Catalase from Lactobacillus plantarum complexed with azide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.39 Å
  • R-Value Free: 0.130 
  • R-Value Work: 0.104 
  • R-Value Observed: 0.105 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Crystal structure of manganese catalase from Lactobacillus plantarum.

Barynin, V.V.Whittaker, M.M.Antonyuk, S.V.Lamzin, V.S.Harrison, P.M.Artymiuk, P.J.Whittaker, J.W.

(2001) Structure 9: 725-738

  • DOI: 10.1016/s0969-2126(01)00628-1
  • Primary Citation of Related Structures:  
    1JKV, 1JKU

  • PubMed Abstract: 
  • Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Two families of catalases are known, one having a heme cofactor, and the other, a structurally distinct family conta ...

    Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Two families of catalases are known, one having a heme cofactor, and the other, a structurally distinct family containing nonheme manganese. We have solved the structure of the mesophilic manganese catalase from Lactobacillus plantarum and its azide-inhibited complex.


    Organizational Affiliation

    The Krebs Institute, Department of Molecular Biology and Biotechnology, University of Sheffield, Firth Court, Western Bank, S10 2TN, Sheffield, United Kingdom. v.barynin@sheffield.ac.uk



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
pseudocatalaseA, B, C, D, E, F266Lactiplantibacillus plantarumMutation(s): 0 
EC: 1.11.1.6
Find proteins for P60355 (Lactobacillus plantarum)
Explore P60355 
Go to UniProtKB:  P60355
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download CCD File 
A, B, C, D, E, F
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
MN3
Query on MN3

Download CCD File 
A, B, C, D, E, F
MANGANESE (III) ION
Mn
MMIPFLVOWGHZQD-UHFFFAOYSA-N
 Ligand Interaction
AZI
Query on AZI

Download CCD File 
A, B, C, D, E, F
AZIDE ION
N3
IVRMZWNICZWHMI-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

Download CCD File 
A, B, C, D, E, F
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
OH
Query on OH

Download CCD File 
A, B, C, D, E, F
HYDROXIDE ION
H O
XLYOFNOQVPJJNP-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.39 Å
  • R-Value Free: 0.130 
  • R-Value Work: 0.104 
  • R-Value Observed: 0.105 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.21α = 90
b = 95.55β = 106.18
c = 106.11γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-07-13
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2016-12-14
    Changes: Structure summary