Hydrogen disorder in kaatialaite Fe[AsO2(OH)2]5H2O from Jáchymov, Czech Republic: determination from low-temperature 3D electron diffraction

. 2021 Jan 01 ; 8 (Pt 1) : 116-123. [epub] 20210101

Status PubMed-not-MEDLINE Jazyk angličtina Země Velká Británie, Anglie Médium electronic-ecollection

Typ dokumentu časopisecké články

Perzistentní odkaz   https://www.medvik.cz/link/pmid33520247

Kaatialaite mineral Fe[AsO2(OH)2]5H2O from Jáchymov, Czech Republic forms white aggregates of needle-shaped crystals with micrometric size. Its structure at ambient temperature has already been reported but hydrogen atoms could not be identified from single-crystal X-ray diffraction. An analysis using 3D electron diffraction at low temperature brings to light the hydrogen positions and the existence of hydrogen disorder. At 100 K, kaatialaite is described in a monoclinic unit cell of a = 15.46, b = 19.996, c = 4.808 Å, β = 91.64° and V = 1485.64 Å3 with space group P21/n. The hydrogen sites were revealed after refinements both considering the dynamical effects and ignoring them. The possibility to access most of the hydrogen positions, including partially occupied ones among heavy atoms, from the kinematical refinement is due to the recent developments in the analysis of 3D electron data. The hydrogen bonding observed in kaatialaite provides examples of H2O configurations that have not been observed before in the structures of oxysalts with the presence of unusual inverse transformer H2O groups.

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Boudjada, A. & Guitel, J. C. (1981). Acta Cryst. B37, 1402–1405.

Brázda, P., Palatinus, L. & Babor, M. (2019). Science, 364, 667–669. PubMed

Brown, I. D. (2002). The Chemical Bond in Inorganic Chemistry: The Bond Valence Model. Hamilton: Oxford University Press.

Brown, I. D. (2009). Chem. Rev. 109, 6858–6919. PubMed PMC

Cichocka, M. O., Ångström, J., Wang, B., Zou, X. & Smeets, S. (2018). J. Appl. Cryst. 51, 1652–1661. PubMed PMC

Clabbers, M. T. B., Gruene, T., Parkhurst, J. M., Abrahams, J. P. & Waterman, D. G. (2018). Acta Cryst. D74, 506–518. PubMed PMC

Clabbers, M. T. B., Gruene, T., van Genderen, E. & Abrahams, J. P. (2019). Acta Cryst. A75, 82–93. PubMed PMC

Conroy, M., Soltis, J. A., Wittman, R. S., Smith, F. N., Chatterjee, S., Zhang, X., Ilton, E. S. & Buck, E. C. (2017). Sci. Rep. 7, 1–10. PubMed PMC

Dorset, D. L. (1995). Structural Electron Crystallography. Boston, Massachusetts: Springer US.

Egerton, R. F. (2011). Electron Energy-Loss Spectroscopy in the Electron Microscope. Boston, Massachusetts: Springer US.

Filippi, M. (2004). Sci. Total Environ. 322, 271–282. PubMed

Gemmi, M. & Lanza, A. E. (2019). Acta Cryst. B75, 495–504. PubMed

Gemmi, M., La Placa, M. G. I., Galanis, A. S., Rauch, E. F. & Nicolopoulos, S. (2015). J. Appl. Cryst. 48, 718–727.

Gemmi, M., Mugnaioli, E., Gorelik, T., Kolb, U., Palatinus, L., Boullay, P., Hovmöller, S. & Abrahams, J. (2019). ACS Cent. Sci. 5, 1315–1329. PubMed PMC

Hawthorne, F. C. (1992). Z. Krist. 201, 183–206.

Hawthorne, F. C. & Schindler, M. (2008). Z. Krist. 223, 41–68.

Hawthorne, F. C. & Sokolova, E. (2012). Z. Krist. 227, 594–603.

Jansen, J., Tang, D., Zandbergen, H. W. & Schenk, H. (1998). Acta Cryst. A54, 91–101.

Kolb, U., Gorelik, T., Kübel, C., Otten, M. T. & Hubert, D. (2007). Ultramicroscopy, 107, 507–513. PubMed

Latychevskaia, T. & Abrahams, J. P. (2019). Acta Cryst. B75, 523–531. PubMed PMC

Majzlan, J., Drahota, P. & Filippi, M. (2014). Rev. Mineral. Geochem. 79, 17–184.

Majzlan, J., Plášil, J., Škoda, R., Gescher, J., Kögler, F., Rusznyak, A., Küsel, K., Neu, T. R., Mangold, S. & Rothe, J. (2014). Environ. Sci. Technol. 48, 13685–13693. PubMed

Mugnaioli, E., Gorelik, T. & Kolb, U. (2009). Ultramicroscopy, 109, 758–765. PubMed

Nannenga, B. L., Shi, D., Leslie, A. G. W. & Gonen, T. (2014). Nat. Methods, 11, 927–930. PubMed PMC

Palatinus, L. (2013). Acta Cryst. B69, 1–16. PubMed

Palatinus, L., Brázda, P., Boullay, P., Perez, O., Klementová, M., Petit, S., Eigner, V., Zaarour, M. & Mintova, S. (2017). Science, 355, 166–169. PubMed

Palatinus, L., Brázda, P., Jelínek, M., Hrdá, J., Steciuk, G. & Klementová, M. (2019). Acta Cryst. B75, 512–522. PubMed

Palatinus, L. & Chapuis, G. (2007). J. Appl. Cryst. 40, 786–790.

Palatinus, L., Corrêa, C. A., Steciuk, G., Jacob, D., Roussel, P., Boullay, P., Klementová, M., Gemmi, M., Kopeček, J., Domeneghetti, M. C., Cámara, F. & Petříček, V. (2015). Acta Cryst. B71, 740–751. PubMed

Palatinus, L., Petříček, V. & Corrêa, C. A. (2015). Acta Cryst. A71, 235–244. PubMed

Petříček, V., Dušek, M. & Palatinus, L. (2014). Z. Krist. 229, 345–352.

Raade, G., Mladeck, M. H., Kristiansen, R. & Din, V. K. (1984). Am. Mineral. 69, 383–387.

Schindler, M. & Hawthorne, F. C. (2008). Can. Mineral. 46, 467–501.

Shi, D., Nannenga, B. L., Iadanza, M. G. & Gonen, T. (2013). eLife, 2, e01345. PubMed PMC

Steciuk, G., Ghazisaeed, S., Kiefer, B. & Plášil, J. (2019). RSC Adv. 9, 19657–19661. PubMed PMC

Vainshtein, B. K. (1964). Structure Analysis by Electron Diffraction, edited by E. Feigl & J. A. Spink, 1st ed. Oxford: Pergamon.

Vincent, R. & Midgley, P. A. (1994). Ultramicroscopy, 53, 271–282.

Winkler, B. (1996). Phys. Chem. Miner. 23, 310–318.

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