4QOQ: Structure Of Bacillus Pumilus Catalase With Guaiacol Bound

Citation:
Abstract
Heme-containing catalases and catalase-peroxidases catalyze the dismutation of hydrogen peroxide as their predominant catalytic activity, but in addition, individual enzymes support low levels of peroxidase and oxidase activities, produce superoxide, and activate isoniazid as an antitubercular drug. The recent report of a heme enzyme with catalase, peroxidase and penicillin oxidase activities in Bacillus pumilus and its categorization as an unusual catalase-peroxidase led us to investigate the enzyme for comparison with other catalase-peroxidases, catalases, and peroxidases. Characterization revealed a typical homotetrameric catalase with one pentacoordinated heme b per subunit (Tyr340 being the axial ligand), albeit in two orientations, and a very fast catalatic turnover rate (kcat = 339,000 s(-1) ). In addition, the enzyme supported a much slower (kcat = 20 s(-1) ) peroxidatic activity utilizing substrates as diverse as ABTS and polyphenols, but no oxidase activity. Two binding sites, one in the main access channel and the other on the protein surface, accommodating pyrogallol, catechol, resorcinol, guaiacol, hydroquinone, and 2-chlorophenol were identified in crystal structures at 1.65-1.95 A. A third site, in the heme distal side, accommodating only pyrogallol and catechol, interacting with the heme iron and the catalytic His and Arg residues, was also identified. This site was confirmed in solution by EPR spectroscopy characterization, which also showed that the phenolic oxygen was not directly coordinated to the heme iron (no low-spin conversion of the Fe(III) high-spin EPR signal upon substrate binding). This is the first demonstration of phenolic substrates directly accessing the heme distal side of a catalase. Proteins 2015; 83:853-866. (c) 2015 Wiley Periodicals, Inc.
PDB ID: 4QOQDownload
MMDB ID: 127269
PDB Deposition Date: 2014/6/20
Updated in MMDB: 2015/04
Experimental Method:
x-ray diffraction
Resolution: 1.7  Å
Source Organism:
Similar Structures:
Biological Unit for 4QOQ: tetrameric; determined by author and by software (PISA)
Molecular Components in 4QOQ
Label Count Molecule
Proteins (4 molecules)
4
Catalase
Molecule annotation
Chemicals (22 molecules)
1
8
2
6
3
6
4
2
* Click molecule labels to explore molecular sequence information.

Citing MMDB
.