5ND6

Crystal structure of apo transketolase from Chlamydomonas reinhardtii

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.58 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.159 
  • R-Value Observed: 0.161 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structural basis for the magnesium-dependent activation of transketolase from Chlamydomonas reinhardtii.

Pasquini, M., Fermani, S., Tedesco, D., Sciabolini, C., Crozet, P., Naldi, M., Henri, J., Vothknecht, U., Bertucci, C., Lemaire, S.D., Zaffagnini, M., Francia, F.

(2017) Biochim Biophys Acta 1861: 2132-2145

  • DOI: https://doi.org/10.1016/j.bbagen.2017.05.021
  • Primary Citation of Related Structures:  
    5ND5, 5ND6

  • PubMed Abstract: 

    In photosynthetic organisms, transketolase (TK) is involved in the Calvin-Benson cycle and participates to the regeneration of ribulose-5-phosphate. Previous studies demonstrated that TK catalysis is strictly dependent on thiamine pyrophosphate (TPP) and divalent ions such as Mg 2+ .

    • Organizational Affiliation: 

    Department of Pharmacy and Biotechnology, University of Bologna, Bologna, Italy.


Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transketolase
A, B
693Chlamydomonas reinhardtiiMutation(s): 0 
Gene Names: TRK1, CHLREDRAFT_141319
EC: 2.2.1.1
UniProt
Find proteins for A8IAN1 (Chlamydomonas reinhardtii)
Explore A8IAN1 
Go to UniProtKB:  A8IAN1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA8IAN1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO
Download Ideal Coordinates CCD File 
C [auth A]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.58 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.159 
  • R-Value Observed: 0.161 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 165.211α = 90
b = 74.311β = 119.3
c = 133.723γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
University of Bologna, Alma Mater StudiourumItalyFARB2012

Revision History  (Full details and data files)

  • Version 1.0: 2017-06-07
    Type: Initial release
  • Version 1.1: 2017-06-28
    Changes: Database references
  • Version 1.2: 2024-01-17
    Changes: Data collection, Database references, Refinement description