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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Ligand Structure Quality Assessment 


This is version 1.1 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: 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+ ...

    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
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TransketolaseA, B692Chlamydomonas reinhardtiiMutation(s): 0 
Gene Names: TRK1CHLREDRAFT_141319CHLRE_02g080200v5
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
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TPP
Query on TPP

Download Ideal Coordinates CCD File 
D [auth A],
F [auth B]
THIAMINE DIPHOSPHATE
C12 H19 N4 O7 P2 S
AYEKOFBPNLCAJY-UHFFFAOYSA-O
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
C [auth A],
E [auth B]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
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