Dissecting the low catalytic capability of flavin-dependent halogenases

Aisaraphon Phintha, Kridsadakorn Prakinee, Aritsara Jaruwat, Narin Lawan, Surawit Visitsatthawong, Chadaporn Kantiwiriyawanitch, Warangkhana Songsungthong, Duangthip Trisrivirat, Pirom Chenprakhon, Adrian Mulholland, Karl-Heinz van Pée, Penchit Chitnumsub, Pimchai Chaiyen

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Although flavin-dependent halogenases (FDHs) are attractive biocatalysts, their practical applications are limited because of their low catalytic efficiency. Here, we investigated the reaction mechanisms and structures of tryptophan 6-halogenase (Thal) from Streptomyces albogriseolus using stopped-flow, rapid-quench flow, quantum/mechanics molecular mechanics calculations, crystallography, and detection of intermediate (hypohalous acid [HOX]) liberation. We found that the key flavin intermediate, C4a-hydroperoxyflavin (C4aOOH-FAD), formed by Thal and other FDHs (tryptophan 7-halogenase [PrnA] and tryptophan 5-halogenase [PyrH]), can react with I-, Br-, and Cl- but not F- to form C4a-hydroxyflavin and HOX. Our experiments revealed that I- reacts with C4aOOH-FAD the fastest with the lowest energy barrier and have shown for the first time that a significant amount of the HOX formed leaks out as free HOX. This leakage is probably a major cause of low product coupling ratios in all FDHs. Site-saturation mutagenesis of Lys79 showed that changing Lys79 to any other amino acid resulted in an inactive enzyme. However, the levels of liberated HOX of these variants are all similar, implying that Lys79 probably does not form a chloramine or bromamine intermediate as previously proposed. Computational calculations revealed that Lys79 has an abnormally lower pKa compared with other Lys residues, implying that the catalytic Lys may act as a proton donor in catalysis. Analysis of new X-ray structures of Thal also explains why premixing of FDHs with reduced flavin adenine dinucleotide generally results in abolishment of C4aOOH-FAD formation. These findings reveal the hidden factors restricting FDHs capability which should be useful for future development of FDHs applications.

Original languageEnglish
Article number100068
Pages (from-to)100068
JournalJournal of Biological Chemistry
Early online date23 Nov 2020
Publication statusPublished - 20 Jan 2021

Bibliographical note

Funding Information:
Acknowledgments—This research was financially supported by Thailand Science Research Innovation and National Research Council of Thailand through grants Royal Golden Jubilee PHD/ 0135/2557 (to A. P.), Program Management Unit-B through Global Partnership grant (to P. C.) and from Vidyasirimedhi Institute of Science and Technology (VISTEC) (to K.P. and P. C.). We thank Ms Waraporn Pinyo and NSTDA Characterization and Testing Center (NCTC, NSTDA Thailand) for X-ray data collection on the single crystal X-ray diffraction D8 venture. A. J. M. thanks EPSRC for funding (grant numbers EP/M022609/1 and EP/ M013219/1). This research work was partially supported by Chiang Mai University (to N. L.). We also thank Ms Pornkanok Pongpamorn for analyzing NMR of the products. We thank the Frontier Research Center (FRC) at VISTEC for providing assistance and facilities for NMR and high resolution mass spectrometry for the analysis of the products.

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