Non-cryogenic structure of a chloride pump provides crucial clues to temperature-dependent channel transport efficiency

Ji Hye Yun, Xuanxuan Li, Jae Hyun Park, Yang Wang, Mio Ohki, Zeyu Jin, Wonbin Lee, Sam Yong Park, Hao Hu, Chufeng Li, Nadia Zatsepin, Mark S. Hunter, Raymond G. Sierra, Jake Koralek, Chun Hong Yoon, Hyun Soo Cho, Uwe Weierstall, Leihan Tang, Haiguang Liu, Weontae Lee

Research output: Contribution to journalArticle

3 Scopus citations

Abstract

Non-cryogenic protein structures determined at ambient temperature may disclose significant information about protein activity. Chloride-pumping rhodopsin (ClR) exhibits a trend to hyperactivity induced by a change in the photoreaction rate because of a gradual decrease in temperature. Here, to track the structural changes that explain the differences in CIR activity resulting from these temperature changes, we used serial femtosecond crystallography (SFX) with an X-ray free electron laser (XFEL) to determine the non-cryogenic structure of ClR at a resolution of 1.85 Å, and compared this structure with a cryogenic ClR structure obtained with synchrotron X-ray crystallography. The XFEL-derived ClR structure revealed that the all-trans retinal (ATR) region and positions of two coordinated chloride ions slightly differed from those of the synchrotron-derived structure. Moreover, the XFEL structure enabled identification of one additional water molecule forming a hydrogen bond network with a chloride ion. Analysis of the channel cavity and a difference distance matrix plot (DDMP) clearly revealed additional structural differences. B-factor information obtained from the non-cryogenic structure supported a motility change on the residual main and side chains as well as of chloride and water molecules because of temperature effects. Our results indicate that non-cryogenic structures and time-resolved XFEL experiments could contribute to a better understanding of the chloride-pumping mechanism of ClR and other ion pumps.

Original languageEnglish (US)
Pages (from-to)794-804
Number of pages11
JournalJournal of Biological Chemistry
Volume294
Issue number3
DOIs
StatePublished - Jan 18 2019

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Cell Biology

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  • Cite this

    Yun, J. H., Li, X., Park, J. H., Wang, Y., Ohki, M., Jin, Z., Lee, W., Park, S. Y., Hu, H., Li, C., Zatsepin, N., Hunter, M. S., Sierra, R. G., Koralek, J., Yoon, C. H., Cho, H. S., Weierstall, U., Tang, L., Liu, H., & Lee, W. (2019). Non-cryogenic structure of a chloride pump provides crucial clues to temperature-dependent channel transport efficiency. Journal of Biological Chemistry, 294(3), 794-804. https://doi.org/10.1074/jbc.RA118.004038