Seleno-detergent MAD phasing of leukotriene C<sub>4</sub> synthase in complex with dodecyl-β-<scp>D</scp>-selenomaltoside

Saino, Hiromichi; Ago, Hideo; Ukita, Yoko; Miyano, Masashi

doi:10.1107/s1744309111042345

Cited by 8 publications

(12 citation statements)

References 16 publications

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“…More recently, the human galectin-9 N -terminal carbohydrate recognition domain was crystallized with the aid of selenosugars [ 64 ]. In the same context, dodecyl-β-selenomaltoside has been successfully utilized as a detergent for stabilizing membrane proteins in water [ 65 ].…”

Section: Selenoglycosidesmentioning

confidence: 99%

Sweet Selenium: Synthesis and Properties of Selenium-Containing Sugars and Derivatives

et al. 2020

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In the last decades, organoselenium compounds gained interest due to their important biological features. However, the lack of solubility, which characterizes most of them, makes their actual clinical exploitability a hard to reach goal. Selenosugars, with their intrinsic polarity, do not suffer from this issue and as a result, they can be conceived as a useful alternative. The aim of this review is to provide basic knowledge of the synthetic aspects of selenosugars, selenonium salts, selenoglycosides, and selenonucleotides. Their biological properties will be briefly detailed. Of course, it will not be a comprehensive dissertation but an analysis of what the authors think is the cream of the crop of this interesting research topic.

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Section: Selenoglycosidesmentioning

confidence: 99%

Sweet Selenium: Synthesis and Properties of Selenium-Containing Sugars and Derivatives

et al. 2020

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“…In previous SRX experiments, MAD phasing with an Se-labeled detergent was reported with a membrane protein, leukotriene C4 synthase, in complex with dodecyl-β-D-selenomaltoside (35). In another study, although phasing was not successful, binding sites of Br-or Hg-labeled phospholipids or detergents were identified at membrane protein reaction centers (36,37).…”

Section: Discussionmentioning

confidence: 99%

Membrane protein structure determination by SAD, SIR, or SIRAS phasing in serial femtosecond crystallography using an iododetergent

Nakane

Hanashima

Suzuki

et al. 2016

Proc. Natl. Acad. Sci. U.S.A.

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The 3D structure determination of biological macromolecules by X-ray crystallography suffers from a phase problem: to perform Fourier transformation to calculate real space density maps, both intensities and phases of structure factors are necessary; however, measured diffraction patterns give only intensities. Although serial femtosecond crystallography (SFX) using X-ray free electron lasers (XFELs) has been steadily developed since 2009, experimental phasing still remains challenging. Here, using 7.0-keV (1.771 Å) X-ray pulses from the SPring-8 Angstrom Compact Free Electron Laser (SACLA), iodine single-wavelength anomalous diffraction (SAD), single isomorphous replacement (SIR), and single isomorphous replacement with anomalous scattering (SIRAS) phasing were performed in an SFX regime for a model membrane protein bacteriorhodopsin (bR). The crystals grown in bicelles were derivatized with an iodine-labeled detergent heavy-atom additive 13a (HAD13a), which contains the magic triangle, I3C head group with three iodine atoms. The alkyl tail was essential for binding of the detergent to the surface of bR. Strong anomalous and isomorphous difference signals from HAD13a enabled successful phasing using reflections up to 2.1-Å resolution from only 3,000 and 4,000 indexed images from native and derivative crystals, respectively. When more images were merged, structure solution was possible with data truncated at 3.3-Å resolution, which is the lowest resolution among the reported cases of SFX phasing. Moreover, preliminary SFX experiment showed that HAD13a successfully derivatized the G protein-coupled A2a adenosine receptor crystallized in lipidic cubic phases. These results pave the way for de novo structure determination of membrane proteins, which often diffract poorly, even with the brightest XFEL beams.

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“…Detergents carrying a heavy atom can be used in membrane protein studies. Dodecyl-β-D-selenomaltoside (SeDDM), a heavy atom analog of dodecyl-β-D-maltoside (DDM), was used to achieve MAD phasing when solving the structure of leukotriene C4 synthase by X-ray crystallography (Figure 5A) [51]. Furthermore, SeDDM was used successfully as a phasing detergent to solve the structure of the prokaryotic pentameric ligand-gated ion channel [52]; however, the sugar headgroups were poorly resolved (Figure 5B).…”

Section: Seleniummentioning

confidence: 99%

Heavy Atom Detergent/Lipid Combined X-ray Crystallography for Elucidating the Structure-Function Relationships of Membrane Proteins

2021

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Membrane proteins reside in the lipid bilayer of biomembranes and the structure and function of these proteins are closely related to their interactions with lipid molecules. Structural analyses of interactions between membrane proteins and lipids or detergents that constitute biological or artificial model membranes are important for understanding the functions and physicochemical properties of membrane proteins and biomembranes. Determination of membrane protein structures is much more difficult when compared with that of soluble proteins, but the development of various new technologies has accelerated the elucidation of the structure-function relationship of membrane proteins. This review summarizes the development of heavy atom derivative detergents and lipids that can be used for structural analysis of membrane proteins and their interactions with detergents/lipids, including their application with X-ray free-electron laser crystallography.

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Seleno-detergent MAD phasing of leukotriene C₄ synthase in complex with dodecyl-β-D-selenomaltoside

Cited by 8 publications

References 16 publications

Sweet Selenium: Synthesis and Properties of Selenium-Containing Sugars and Derivatives

Sweet Selenium: Synthesis and Properties of Selenium-Containing Sugars and Derivatives

Membrane protein structure determination by SAD, SIR, or SIRAS phasing in serial femtosecond crystallography using an iododetergent

Heavy Atom Detergent/Lipid Combined X-ray Crystallography for Elucidating the Structure-Function Relationships of Membrane Proteins

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Seleno-detergent MAD phasing of leukotriene C4 synthase in complex with dodecyl-β-D-selenomaltoside

Cited by 8 publications

References 16 publications

Sweet Selenium: Synthesis and Properties of Selenium-Containing Sugars and Derivatives

Sweet Selenium: Synthesis and Properties of Selenium-Containing Sugars and Derivatives

Membrane protein structure determination by SAD, SIR, or SIRAS phasing in serial femtosecond crystallography using an iododetergent

Heavy Atom Detergent/Lipid Combined X-ray Crystallography for Elucidating the Structure-Function Relationships of Membrane Proteins

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Seleno-detergent MAD phasing of leukotriene C₄ synthase in complex with dodecyl-β-D-selenomaltoside