5ND5

Crystal structure of transketolase from Chlamydomonas reinhardtii in complex with TPP and Mg2+


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.74 Å
  • R-Value Free: 0.186 
  • R-Value Work: 0.145 
  • R-Value Observed: 0.147 

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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+ . TK from the unicellular green alga Chlamydomonas reinhardtii (CrTK) was recombinantly produced and purified to homogeneity. Biochemical properties of the CrTK enzyme were delineated by activity assays and its structural features determined by CD analysis and X-ray crystallography. CrTK is homodimeric and its catalysis depends on the reconstitution of the holo-enzyme in the presence of both TPP and Mg 2+ . Activity measurements and CD analysis revealed that the formation of fully active holo-CrTK is Mg 2+ -dependent and proceeds with a slow kinetics. The 3D-structure of CrTK without cofactors (CrTK apo ) shows that two portions of the active site are flexible and disordered while they adopt an ordered conformation in the holo-form. Oxidative treatments revealed that Mg 2+ participates in the redox control of CrTK by changing its propensity to be inactivated by oxidation. Indeed, the activity of holo-form is unaffected by oxidation whereas CrTK in the apo-form or reconstituted with the sole TPP show a strong sensitivity to oxidative inactivation. These evidences indicate that Mg 2+ is fundamental to allow gradual conformational arrangements suited for optimal catalysis. Moreover, Mg 2+ is involved in the control of redox sensitivity of CrTK. The importance of Mg 2+ in the functionality and redox sensitivity of CrTK is correlated to light-dependent fluctuations of Mg 2+ in chloroplasts.


  • Organizational Affiliation

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


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transketolase
A, B
692Chlamydomonas reinhardtiiMutation(s): 0 
Gene Names: TRK1CHLREDRAFT_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
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.74 Å
  • R-Value Free: 0.186 
  • R-Value Work: 0.145 
  • R-Value Observed: 0.147 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 201.489α = 90
b = 75.93β = 109.99
c = 103.759γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


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, Derived calculations, Refinement description