3LJ9

X-ray structure of the iron superoxide dismutase from pseudoalteromonas haloplanktis in complex with sodium azide

Summary for 3LJ9

• Entry DOI: 10.2210/pdb3lj9/pdb
• Related: 3LIO 3LJF
• Related PRD ID: PRD_900006
• Descriptor: iron superoxide dismutase, alpha-D-glucopyranose-(1-1)-alpha-D-glucopyranose, AZIDE ION, ... (5 entities in total)
• Functional Keywords: cold adaptation, superoxide dismutase, flexibility, thermal stability, psychrophilic protein, metal-binding, oxidoreductase
• Biological source: Pseudoalteromonas haloplanktis
• Total number of polymer chains: 2
• Total formula weight: 43419.34

Authors

Merlino, A.,Russo Krauss, I.,Rossi, B.,Conte, M.,Vergara, A.,Sica, F. (deposition date: 2010-01-26, release date: 2010-09-08, Last modification date: 2023-09-06)

Primary citation

Merlino, A.,Russo Krauss, I.,Castellano, I.,De Vendittis, E.,Rossi, B.,Conte, M.,Vergara, A.,Sica, F.
Structure and flexibility in cold-adapted iron superoxide dismutases: the case of the enzyme isolated from Pseudoalteromonas haloplanktis.
J.Struct.Biol., 172:343-352, 2010

PubMed Abstract: Superoxide dismutases (SODs) are metalloenzymes catalysing the dismutation of superoxide anion radicals into molecular oxygen and hydrogen peroxide. Here, we present the crystal structure of a cold-adapted Fe-SOD from the Antarctic eubacterium Pseudoalteromonas haloplanktis (PhSOD), and that of its complex with sodium azide. The structures were compared with those of the corresponding homologues having a high sequence identity with PhSOD, such as the mesophilic SOD from Escherichia coli (EcSOD) or Pseudomonas ovalis, and the psychrophilic SOD from Aliivibrio salmonicida (AsSOD). These enzymes shared a large structural similarity, such as a conserved tertiary structure and arrangement of the two monomers, an almost identical total number of inter- and intramolecular hydrogen bonds and salt bridges. However, the two cold-adapted SODs showed an increased flexibility of the active site residues with respect to their mesophilic homologues. Structural information was combined with a characterisation of the chemical and thermal stability performed by CD and fluorescence measurements. Despite of its psychrophilic origin, the denaturation temperature of PhSOD was comparable with that of the mesophilic EcSOD, whereas AsSOD showed a lower denaturation temperature. On the contrary, the values of the denaturant concentration at the transition midpoint were in line with the psychrophilic/mesophilic origin of the proteins. These data provide additional support to the hypothesis that cold-adapted enzymes achieve efficient catalysis at low temperature, by increasing the flexibility of their active site; moreover, our results underline how fine structural modifications can alter enzyme flexibility and/or stability without compromising the overall structure of typical rigid enzymes, such as SODs.

PubMed: 20732427
DOI: 10.1016/j.jsb.2010.08.008

Experimental method

X-RAY DIFFRACTION (2.1 Å)