2ZE3 image
Entry Detail
PDB ID:
2ZE3
Keywords:
Title:
Crystal Structure of DFA0005 Complexed with alpha-Ketoglutarate: A Novel Member of the ICL/PEPM Superfamily from Alkali-tolerant Deinococcus ficus
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2007-12-05
Release Date:
2008-08-12
Method Details:
Experimental Method:
Resolution:
1.65 Å
R-Value Free:
0.23
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 63 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:DFA0005
Chain IDs:A
Chain Length:275
Number of Molecules:1
Biological Source:Deinococcus ficus
Ligand Molecules
Primary Citation
Crystal structure of DFA0005 complexed with alpha-ketoglutarate: a novel member of the ICL/PEPM superfamily from alkali-tolerant Deinococcus ficus
Proteins 73 362 371 (2008)
PMID: 18433062 DOI: 10.1002/prot.22071

Abstact

The crystal structure of the DFA0005 protein complexed with alpha-ketoglutarate (AKG) from an alkali-tolerant bacterium Deinococcus ficus has been determined to a resolution of 1.62 A. The monomer forms an incomplete alpha7/beta8 barrel with a protruding alpha8 helix that interacts extensively with another subunit to form a stable dimer of two complete alpha8/beta8 barrels. The dimer is further stabilized by four glycerol molecules situated at the interface. One unique AKG ligand binding pocket per subunit is detected. Fold match using the DALI and SSE servers identifies DFA0005 as belonging to the isocitrate lyase/phosphoenolpyruvate mutase (ICL/PEPM) superfamily. However, further detailed structural and sequence comparison with other members in this superfamily and with other families containing AKG ligand indicate that DFA0005 protein exhibits considerable distinguishing features of its own and can be considered a novel member in this ICL/PEPM superfamily.

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Primary Citation of related structures