PDBsum entry 2r2f

Oxidoreductase

PDB id: 2r2f

Contents

Protein chains

286 a.a. *

Ligands

FEO ×2

Waters ×415

* Residue conservation analysis

References listed in PDB file

Key reference

• Title: Structure of salmonella typhimurium nrdf ribonucleotide reductase in its oxidized and reduced forms.
• Authors: M.Eriksson, A.Jordan, H.Eklund.
• Ref.: Biochemistry, 1998, 37, 13359-13369. [DOI no: 10.1021/bi981380s]
• PubMed id: 9748343

Abstract

The first class Ib ribonucleotide reductase R2 structure, from Salmonella typhimurium, has been determined at 2.0 A resolution. The overall structure is similar to the Escherichia coli class Ia enzyme despite only 23% sequence identity. The most spectacular difference is the absence of the pleated sheet and adjacent parts present in the E. coli R2 structure; the heart-shaped structure loses its tip. From sequence comparisons, it appears that this feature is shared with all other class Ib enzymes and, in this respect, is more like the mammalian class Ia enzymes. Both the oxidized and reduced iron forms have been investigated. In the ferric iron center, both iron ions are octahedrally coordinated and bridged by one carboxylate and one oxide ion. The ferrous form has lost the bridging oxide ion but is bridged by two carboxylates. Accompanying the change in redox state, helix E changes its conformation from one covering the metal center in the oxidized form to a more open reduced form. A narrow channel is opened which may permit easier access of oxygen to the ferrous iron site and to efficiently generate the tyrosyl radical.