title: New insight into the peroxidase-hydroxamic acid interaction revealed by the combination of spectroscopic and crystallographic studies.
abstract: Aromatic hydroxamic acids, such as salicylhydroxamic (SHA) and benzohydroxamic (BHA) acids, are commonly used as probes for studying the active sites of peroxidases. In this paper, we have extended the study of the complexes of Arthromyces ramosus peroxidase (ARP/CIP) with BHA and SHA by analyzing their Raman spectra in solution and in single crystals. The experiments were carried out under various conditions to identify the best experimental conditions, and hence, avoid artifacts deriving from the preparation of the samples or collection of the spectra. The analysis of the data takes also into account the characteristic of the electronic absorption spectra in solution and the crystal structures of the complexes. The results showed small differences between the solution and the crystal phases even though the coordination state can be dramatically affected by the physical or chemical conditions. The greater sensitivity of the spectroscopic technique enabled us to establish the existence of multiple species upon complexation of the protein with the hydroxamic acids that could not be detected by ordinary X-ray crystallography. Furthermore, SHA titration experiments and singular value decomposition analysis of the absorption spectra indicated the presence of two binding sites in the protein, one with a high affinity (K(d) = 1.7 mM), which should correspond to the SHA bound protein as determined by X-ray, and the other with a very low affinity (K(d) > 80 mM) probably located in a non-heme site. This suggests that the heterogeneous titration line shape involves ligand binding to a non-heme site in competition with the canonical heme site. In contrast, the titration profile obtained with the BHA ligand is monophasic, in agreement with all the peroxidases so far studied.
authors.affiliation: Dipartimento di Chimica, Universita' di Firenze, Polo Scientifico, Via della Lastruccia 3, I-50019 Sesto Fiorentino (FI), Italy.
authors.forename: Chiara
authors.initials: C
authors.lastname: Indiani
authors.forename: Elisa
authors.initials: E
authors.lastname: Santoni
authors.forename: Maurizio
authors.initials: M
authors.lastname: Becucci
authors.forename: Alberto
authors.initials: A
authors.lastname: Boffi
authors.forename: Keiichi
authors.initials: K
authors.lastname: Fukuyama
authors.forename: Giulietta
authors.initials: G
authors.lastname: Smulevich
mesh_terms: D001665:Binding Sites; D003302:Coprinus / Q000201:enzymology*; D003460:Crystallization; D018360:Crystallography, X-Ray / Q000379:methods; D005656:Fungal Proteins / Q000737:chemistry*; D006877:Hydroxamic Acids / Q000737:chemistry*; D046911:Macromolecular Substances; D003904:Mitosporic Fungi / Q000201:enzymology*; D010544:Peroxidases / Q000737:chemistry*; D012457:Salicylamides / Q000737:chemistry*; D012996:Solutions; D013056:Spectrophotometry, Ultraviolet; D013059:Spectrum Analysis, Raman / Q000379:methods
chemical_list: D005656:Fungal Proteins; D006877:Hydroxamic Acids; D046911:Macromolecular Substances; D012457:Salicylamides; D012996:Solutions; C005703:salicylhydroxamic acid; D010544:Peroxidases; C006696:benzohydroxamic acid