Crystal Structure of Γ-Hexachlorocyclohexane Dehydrochlorinase LinA from Sphingobium japonicum UT26

Masahiko Okai, Keiko Kubota, Masao Fukuda, Yuji Nagata, Koji Nagata, Masaru Tanokura

    Research output: Contribution to journalArticlepeer-review

    31 Citations (Scopus)

    Abstract

    LinA from Sphingobium japonicum UT26 catalyzes two steps of dehydrochlorination from Γ hexachlorocyclohexane (HCH) to 1,3,4,6-tetrachloro-1,4-cyclohexadiene via Γ-pentachlorocyclohexene. We determined the crystal structure of LinA at 2.25Å by single anomalous dispersion. LinA exists as a homotrimer, and each protomer forms a cone-shaped α + β barrel fold. The C-terminal region of LinA is extended to the neighboring subunit, unlike that of scytalone dehydratase from Magnaporthe grisea, which is one of the most structurally similar proteins identified by the DALI server. The structure we obtained in this study is in open form, in which Γ-HCH can enter the active site. There is a hydrophobic cavity inside the barrel fold, and the active site is largely surrounded by the side chains of K20, L21, V24, D25, W42, L64, F68, C71, H73, V94, L96, I109, F113, and R129. H73 was considered to function as a base that abstracts the proton of Γ-HCH through its interaction with D25. Docking simulations with Γ-HCH and Γ-pentachlorocyclohexene suggest that 11 residues (K20, I44, L64, V94, L96, I109, A111, F113, A131, C132, and T133) are involved in the binding of these compounds and support the degradation mechanism.

    Original languageEnglish
    Pages (from-to)260-269
    Number of pages10
    JournalJournal of Molecular Biology
    Volume403
    Issue number2
    DOIs
    Publication statusPublished - 2010 Oct 22

    Keywords

    • Crystallography
    • Dehydrochlorinase
    • LinA
    • Sphingobium japonicum UT26
    • γ-hexachlorocyclohexane

    ASJC Scopus subject areas

    • Structural Biology
    • Molecular Biology

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