3SDP image
Deposition Date 1991-05-06
Release Date 1993-04-15
Last Version Date 2024-02-28
Entry Detail
PDB ID:
3SDP
Title:
THE 2.1 ANGSTROMS RESOLUTION STRUCTURE OF IRON SUPEROXIDE DISMUTASE FROM PSEUDOMONAS OVALIS
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.10 Å
R-Value Observed:
0.23
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:IRON SUPEROXIDE DISMUTASE
Gene (Uniprot):sodB
Chain IDs:A, B
Chain Length:195
Number of Molecules:2
Biological Source:Pseudomonas putida
Ligand Molecules
Primary Citation
The 2.1-A resolution structure of iron superoxide dismutase from Pseudomonas ovalis.
Biochemistry 29 8885 8893 (1990)
PMID: 2271564 DOI: 10.1021/bi00490a002

Abstact

The 2.1-A resolution crystal structure of native uncomplexed iron superoxide dismutase (EC 1.15.1.1) from Pseudomonas ovalis was solved and refined to a final R factor of 24%. The dimeric structure contains one catalytic iron center per monomer with an asymmetric trigonal-bipyramidal coordination of protein ligands to the metal. Each monomer contains two domains, with the trigonal ligands (histidines 74 and 160; aspartate 156) contributed by the large domain and stabilized by an extended hydrogen-bonded network, including residues from opposing monomers. The axial ligand (histidine 26) is found on the small domain and does not participate extensively in the stabilizing H-bond network. The open axial coordination position of the iron is devoid of bound water molecules or anions. The metal is located 0.5 A out of the plane of the trigonal ligands toward histidine 26, providing a slightly skewed coordination away from the iron binding site. The molecule contains a glutamine residue in the active site which is conserved between all iron enzymes sequenced to data but which is conserved among all manganese SODs at a separate position in the sequence. This residue shows the same structural interactions in both cases, implying that iron and manganese SODs are second-site revertants of one another.

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