4Q75

Crystal structure of Nfs2, the plastidial cysteine desulfurase from Arabidopsis thaliana


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.71 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.204 

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This is version 1.1 of the entry. See complete history


Literature

X-ray structures of Nfs2, the plastidial cysteine desulfurase from Arabidopsis thaliana.

Roret, T.Pegeot, H.Couturier, J.Mulliert, G.Rouhier, N.Didierjean, C.

(2014) Acta Crystallogr Sect F Struct Biol Cryst Commun 70: 1180-1185

  • DOI: 10.1107/S2053230X14017026
  • Primary Citation of Related Structures:  
    4Q75, 4Q76

  • PubMed Abstract: 
  • The chloroplastic Arabidopsis thaliana Nfs2 (AtNfs2) is a group II pyridoxal 5'-phosphate-dependent cysteine desulfurase that is involved in the initial steps of iron-sulfur cluster biogenesis. The group II cysteine desulfurases require the presence of sulfurtransferases such as SufE proteins for optimal activity ...

    The chloroplastic Arabidopsis thaliana Nfs2 (AtNfs2) is a group II pyridoxal 5'-phosphate-dependent cysteine desulfurase that is involved in the initial steps of iron-sulfur cluster biogenesis. The group II cysteine desulfurases require the presence of sulfurtransferases such as SufE proteins for optimal activity. Compared with group I cysteine desulfurases, proteins of this group contains a smaller extended lobe harbouring the catalytic cysteine and have a β-hairpin constraining the active site. Here, two crystal structures of AtNfs2 are reported: a wild-type form with the catalytic cysteine in a persulfide-intermediate state and a C384S variant mimicking the resting state of the enzyme. In both structures the well conserved Lys241 covalently binds pyridoxal 5'-phosphate, forming an internal aldimine. Based on available homologous bacterial complexes, a model of a complex between AtNfs2 and the SufE domain of its biological partner AtSufE1 is proposed, revealing the nature of the binding sites.


    Organizational Affiliation

    Université de Lorraine, UMR 7036 CRM2, BioMod Group, BP 70239, 54506 Vandoeuvre-lès-Nancy, France.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cysteine desulfurase 2, chloroplasticA, B429Arabidopsis thalianaMutation(s): 0 
Gene Names: NFS2NIFSAt1g08490T27G7.17CpNIFSCpNIFS1
EC: 2.8.1.7 (PDB Primary Data), 4.4.1.16 (PDB Primary Data)
Find proteins for Q93WX6 (Arabidopsis thaliana)
Explore Q93WX6 
Go to UniProtKB:  Q93WX6
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
CSS
Query on CSS
A, BL-PEPTIDE LINKINGC3 H7 N O2 S2CYS
LLP
Query on LLP
A, BL-PEPTIDE LINKINGC14 H22 N3 O7 PLYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.71 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.204 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 81.567α = 90
b = 68.205β = 94.76
c = 87.066γ = 90
Software Package:
Software NamePurpose
Xnemodata collection
MOLREPphasing
PHENIXrefinement
XDSdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-10
    Type: Initial release
  • Version 1.1: 2014-09-24
    Changes: Database references