3CB8 image
Deposition Date 2008-02-21
Release Date 2008-10-28
Last Version Date 2024-02-21
Entry Detail
PDB ID:
3CB8
Keywords:
Title:
4Fe-4S-Pyruvate formate-lyase activating enzyme in complex with AdoMet and a peptide substrate
Biological Source:
Source Organism:
Escherichia coli (Taxon ID: )
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.77 Å
R-Value Free:
0.25
R-Value Work:
0.22
R-Value Observed:
0.27
Space Group:
P 61 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Pyruvate formate-lyase 1-activating enzyme
Gene (Uniprot):pflA
Chain IDs:A
Chain Length:245
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:peptide substrate VSGYAV
Chain IDs:B
Chain Length:6
Number of Molecules:1
Biological Source:
Primary Citation
Structural basis for glycyl radical formation by pyruvate formate-lyase activating enzyme.
Proc.Natl.Acad.Sci.Usa 105 16137 16141 (2008)
PMID: 18852451 DOI: 10.1073/pnas.0806640105

Abstact

Pyruvate formate-lyase activating enzyme generates a stable and catalytically essential glycyl radical on G(734) of pyruvate formate-lyase via the direct, stereospecific abstraction of a hydrogen atom from pyruvate formate-lyase. The activase performs this remarkable feat by using an iron-sulfur cluster and S-adenosylmethionine (AdoMet), thus placing it among the AdoMet radical superfamily of enzymes. We report here structures of the substrate-free and substrate-bound forms of pyruvate formate-lyase-activating enzyme, the first structures of an AdoMet radical activase. To obtain the substrate-bound structure, we have used a peptide substrate, the 7-mer RVSGYAV, which contains the sequence surrounding G(734). Our structures provide fundamental insights into the interactions between the activase and the G(734) loop of pyruvate formate-lyase and provide a structural basis for direct and stereospecific H atom abstraction from the buried G(734) of pyruvate formate-lyase.

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