6BVR

Crystal structure of 3-hydroxyanthranilate-3,4-dioxygenase I142A from Cupriavidus metallidurans

Summary for 6BVR

• Entry DOI: 10.2210/pdb6bvr/pdb
• Descriptor: 3-hydroxyanthranilate 3,4-dioxygenase, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, FE (II) ION, ... (4 entities in total)
• Functional Keywords: holo structure, dioxygenase, mutant i142a, oxidoreductase
• Biological source: Cupriavidus metallidurans (Ralstonia metallidurans)
• Total number of polymer chains: 1
• Total formula weight: 22782.13

Authors

Yang, Y.,Liu, F.,Liu, A. (deposition date: 2017-12-13, release date: 2018-06-06, Last modification date: 2024-03-13)

Primary citation

Yang, Y.,Liu, F.,Liu, A.
Adapting to oxygen: 3-Hydroxyanthrinilate 3,4-dioxygenase employs loop dynamics to accommodate two substrates with disparate polarities.
J. Biol. Chem., 293:10415-10424, 2018

PubMed Abstract: 3-Hydroxyanthranilate 3,4-dioxygenase (HAO) is an iron-dependent protein that activates O and inserts both oxygen atoms into 3-hydroxyanthranilate (3-HAA). An intriguing question is how HAO can rapidly bind O, even though local O concentrations and diffusion rates are relatively low. Here, a close inspection of the HAO structures revealed that substrate- and inhibitor-bound structures exhibit a closed conformation with three hydrophobic loop regions moving toward the catalytic iron center, whereas the ligand-free structure is open. We hypothesized that these loop movements enhance O binding to the binary complex of HAO and 3-HAA. We found that the carboxyl end of 3-HAA triggers changes in two loop regions and that the third loop movement appears to be driven by an H-bond interaction between Asn and Ile Mutational analyses revealed that N27A, I142A, and I142P variants cannot form a closed conformation, and steady-state kinetic assays indicated that these variants have a substantially higher for O than WT HAO. This observation suggested enhanced hydrophobicity at the iron center resulting from the concerted loop movements after the binding of the primary substrate, which is hydrophilic. Given that O is nonpolar, the increased hydrophobicity at the iron center of the binary complex appears to be essential for rapid O binding and activation, explaining the reason for the 3-HAA-induced loop movements. Because substrate binding-induced open-to-closed conformational changes are common, the results reported here may help further our understanding of how oxygen is enriched in nonheme iron-dependent dioxygenases.

PubMed: 29784877
DOI: 10.1074/jbc.RA118.002698

Experimental method

X-RAY DIFFRACTION (1.9 Å)