Nonstoichiometric complex of gramicidin D with KI at 0.80 Å resolution

A. Olczak, M. L. Główka*, M. Szczesio, J. Bojarska, W. L. Duax, B. M. Burkhart, Zdzislaw Wawrzak

*Corresponding author for this work

    Research output: Contribution to journalArticlepeer-review

    10 Scopus citations

    Abstract

    The crystal structure of a nonstoichiometric complex of gramicidin D (gD) with KI has been determined at 100 K using synchrotron radiation. The final R factor was 0.106 for 83 988 observed reflections (Friedel pairs were not merged) collected to 0.80 Å. The structure consists of four independent pentadecapeptides and numerous solvent molecules and salt ions. The general architecture of the antiparallel double-stranded gramicidin dimers in the crystal (a right-handed antiparallel DSβHR form) closely resembles that of previously published cation complexes of gD. However, a significantly different mixture of gramicidin isomers is found in the crystal of the KI complex, including partial occupancy of phenylalanine at position 11. Only three sites in each of the two crystallographically independent channels are partially occupied by potassium cations instead of the commonly observed seven sites. The sum of the partial occupancies of K+ (1.10 per two dimers) is consistent with the sum of the iodide occupancies (1.095 over eight sites), which is also confirmed by the anomalous signal of the iodide. There was a significant asymmetry of the distribution and occupancies of cations in the crystallographically independent gramicidin channels, in contrast to the distribution found in the rubidium chloride complex with gD.

    Original languageEnglish (US)
    Pages (from-to)319-327
    Number of pages9
    JournalActa Crystallographica Section D: Biological Crystallography
    Volume63
    Issue number3
    DOIs
    StatePublished - Feb 21 2007

    Keywords

    • Anomalous scattering
    • Double-stranded gramicidin dimer
    • Flack parameter
    • Gramicidin-KI complex
    • High resolution

    ASJC Scopus subject areas

    • Structural Biology

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