8IX6

Crystal structure of Pyruvic Oxime Dioxygenase (POD) from Bradyrhizobium sp. WSM3983


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.231 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural and functional analysis of pyruvic oxime dioxygenase, a key enzyme of heterotrophic nitrification

Tsujino, S.Yamada, Y.Senda, M.Senda, T.Fujiwara, T.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Aldolase264Bradyrhizobium sp. WSM3983Mutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.231 
  • Space Group: I 4 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 153.896α = 90
b = 153.896β = 90
c = 153.896γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
autoPROCdata processing
CRANK2phasing
XDSdata scaling

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan21K12220
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan17K00517

Revision History  (Full details and data files)

  • Version 1.0: 2024-04-03
    Type: Initial release