4PDE image
Entry Detail
PDB ID:
4PDE
Keywords:
Title:
Crystal structure of FdhD in complex with GDP
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2014-04-18
Release Date:
2015-05-20
Method Details:
Experimental Method:
Resolution:
2.80 Å
R-Value Free:
0.27
R-Value Work:
0.18
R-Value Observed:
0.19
Space Group:
P 61 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Protein FdhD
Chain IDs:A
Chain Length:285
Number of Molecules:1
Biological Source:Escherichia coli
Ligand Molecules
Primary Citation
Sulphur shuttling across a chaperone during molybdenum cofactor maturation.
Nat Commun 6 6148 6148 (2015)
PMID: 25649206 DOI: 10.1038/ncomms7148

Abstact

Formate dehydrogenases (FDHs) are of interest as they are natural catalysts that sequester atmospheric CO2, generating reduced carbon compounds with possible uses as fuel. FDHs activity in Escherichia coli strictly requires the sulphurtransferase EcFdhD, which likely transfers sulphur from IscS to the molybdenum cofactor (Mo-bisPGD) of FDHs. Here we show that EcFdhD binds Mo-bisPGD in vivo and has submicromolar affinity for GDP-used as a surrogate of the molybdenum cofactor's nucleotide moieties. The crystal structure of EcFdhD in complex with GDP shows two symmetrical binding sites located on the same face of the dimer. These binding sites are connected via a tunnel-like cavity to the opposite face of the dimer where two dynamic loops, each harbouring two functionally important cysteine residues, are present. On the basis of structure-guided mutagenesis, we propose a model for the sulphuration mechanism of Mo-bisPGD where the sulphur atom shuttles across the chaperone dimer.

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Primary Citation of related structures