4ITK

The structure of C.reinhardtii Ferredoxin 2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.18 Å
  • R-Value Free: 0.147 
  • R-Value Work: 0.109 
  • R-Value Observed: 0.110 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure and biochemical characterization of Chlamydomonas FDX2 reveal two residues that, when mutated, partially confer FDX2 the redox potential and catalytic properties of FDX1.

Boehm, M.Alahuhta, M.Mulder, D.W.Peden, E.A.Long, H.Brunecky, R.Lunin, V.V.King, P.W.Ghirardi, M.L.Dubini, A.

(2016) Photosynth Res 128: 45-57

  • DOI: https://doi.org/10.1007/s11120-015-0198-6
  • Primary Citation of Related Structures:  
    4ITK

  • PubMed Abstract: 

    The green alga Chlamydomonas reinhardtii contains six plastidic [2Fe2S]-cluster ferredoxins (FDXs), with FDX1 as the predominant isoform under photoautotrophic growth. FDX2 is highly similar to FDX1 and has been shown to interact with specific enzymes (such as nitrite reductase), as well as to share interactors with FDX1, such as the hydrogenases (HYDA), ferredoxin:NAD(P) reductase I (FNR1), and pyruvate:ferredoxin oxidoreductase (PFR1), albeit performing at low catalytic rates. Here we report the FDX2 crystal structure solved at 1.18 Å resolution. Based on differences between the Chlorella fusca FDX1 and C. reinhardtii FDX2 structures, we generated and purified point-mutated versions of the FDX2 protein and assayed them in vitro for their ability to catalyze hydrogen and NADPH photo-production. The data show that structural differences at two amino acid positions contribute to functional differences between FDX1 and FDX2, suggesting that FDX2 might have evolved from FDX1 toward a different physiological role in the cell. Moreover, we demonstrate that the mutations affect both the midpoint potentials of the FDX and kinetics of the FNR reaction, possibly due to altered binding between FDX and FNR. An effect on H2 photo-production rates was also observed, although the kinetics of the reaction were not further characterized.


  • Organizational Affiliation

    Biosciences Center, National Renewable Energy Laboratory, Mail Stop: 3313, 15013 Denver West Parkway, Golden, CO, 80401, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Apoferredoxin105Chlamydomonas reinhardtiiMutation(s): 0 
Gene Names: FDX2
UniProt
Find proteins for Q2HZ25 (Chlamydomonas reinhardtii)
Explore Q2HZ25 
Go to UniProtKB:  Q2HZ25
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2HZ25
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.18 Å
  • R-Value Free: 0.147 
  • R-Value Work: 0.109 
  • R-Value Observed: 0.110 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 25.429α = 102.56
b = 26.458β = 104.35
c = 31.016γ = 100.3
Software Package:
Software NamePurpose
PROTEUM PLUSdata collection
MrBump/Molrepmodel building
REFMACrefinement
PROTEUM PLUSdata reduction
PROTEUM PLUSdata scaling
MrBump/Molrepphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-01-29
    Type: Initial release
  • Version 1.1: 2019-06-05
    Changes: Data collection, Database references
  • Version 1.2: 2023-09-20
    Changes: Data collection, Database references, Derived calculations, Refinement description