[{"article_processing_charge":"No","day":"20","month":"05","doi":"10.1021/jacs.9b13450.s001","date_published":"2020-05-20T00:00:00Z","citation":{"mla":"Gupta, Chitrak, et al. Supporting Information. American Chemical Society , 2020, doi:10.1021/jacs.9b13450.s001.","short":"C. Gupta, U. Khaniya, C.K. Chan, F. Dehez, M. Shekhar, M.R. Gunner, L.A. Sazanov, C. Chipot, A. Singharoy, (2020).","chicago":"Gupta, Chitrak, Umesh Khaniya, Chun Kit Chan, Francois Dehez, Mrinal Shekhar, M.R. Gunner, Leonid A Sazanov, Christophe Chipot, and Abhishek Singharoy. “Supporting Information.” American Chemical Society , 2020. https://doi.org/10.1021/jacs.9b13450.s001.","ama":"Gupta C, Khaniya U, Chan CK, et al. Supporting information. 2020. doi:10.1021/jacs.9b13450.s001","ista":"Gupta C, Khaniya U, Chan CK, Dehez F, Shekhar M, Gunner MR, Sazanov LA, Chipot C, Singharoy A. 2020. Supporting information, American Chemical Society , 10.1021/jacs.9b13450.s001.","ieee":"C. Gupta et al., “Supporting information.” American Chemical Society , 2020.","apa":"Gupta, C., Khaniya, U., Chan, C. K., Dehez, F., Shekhar, M., Gunner, M. R., … Singharoy, A. (2020). Supporting information. American Chemical Society . https://doi.org/10.1021/jacs.9b13450.s001"},"abstract":[{"lang":"eng","text":"Additional analyses of the trajectories"}],"type":"research_data_reference","related_material":{"record":[{"id":"8040","relation":"used_in_publication","status":"public"}]},"author":[{"last_name":"Gupta","first_name":"Chitrak","full_name":"Gupta, Chitrak"},{"full_name":"Khaniya, Umesh","first_name":"Umesh","last_name":"Khaniya"},{"full_name":"Chan, Chun Kit","last_name":"Chan","first_name":"Chun Kit"},{"full_name":"Dehez, Francois","last_name":"Dehez","first_name":"Francois"},{"full_name":"Shekhar, Mrinal","first_name":"Mrinal","last_name":"Shekhar"},{"last_name":"Gunner","first_name":"M.R.","full_name":"Gunner, M.R."},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","first_name":"Leonid A","last_name":"Sazanov","full_name":"Sazanov, Leonid A"},{"full_name":"Chipot, Christophe","first_name":"Christophe","last_name":"Chipot"},{"full_name":"Singharoy, Abhishek","last_name":"Singharoy","first_name":"Abhishek"}],"oa_version":"Published Version","date_updated":"2023-08-22T07:49:38Z","date_created":"2021-07-23T12:02:39Z","_id":"9713","year":"2020","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","publisher":"American Chemical Society ","department":[{"_id":"LeSa"}],"status":"public","title":"Supporting information"},{"type":"research_data_reference","title":"Movies","status":"public","publisher":"American Chemical Society","department":[{"_id":"LeSa"}],"_id":"9878","year":"2020","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_updated":"2023-08-22T07:49:38Z","date_created":"2021-08-11T09:18:54Z","oa_version":"Published Version","author":[{"first_name":"Chitrak","last_name":"Gupta","full_name":"Gupta, Chitrak"},{"last_name":"Khaniya","first_name":"Umesh","full_name":"Khaniya, Umesh"},{"first_name":"Chun Kit","last_name":"Chan","full_name":"Chan, Chun Kit"},{"first_name":"Francois","last_name":"Dehez","full_name":"Dehez, Francois"},{"full_name":"Shekhar, Mrinal","first_name":"Mrinal","last_name":"Shekhar"},{"last_name":"Gunner","first_name":"M.R.","full_name":"Gunner, M.R."},{"full_name":"Sazanov, Leonid A","last_name":"Sazanov","first_name":"Leonid A","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Chipot, Christophe","last_name":"Chipot","first_name":"Christophe"},{"first_name":"Abhishek","last_name":"Singharoy","full_name":"Singharoy, Abhishek"}],"related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"8040"}]},"day":"20","month":"05","article_processing_charge":"No","citation":{"mla":"Gupta, Chitrak, et al. Movies. American Chemical Society, 2020, doi:10.1021/jacs.9b13450.s002.","short":"C. Gupta, U. Khaniya, C.K. Chan, F. Dehez, M. Shekhar, M.R. Gunner, L.A. Sazanov, C. Chipot, A. Singharoy, (2020).","chicago":"Gupta, Chitrak, Umesh Khaniya, Chun Kit Chan, Francois Dehez, Mrinal Shekhar, M.R. Gunner, Leonid A Sazanov, Christophe Chipot, and Abhishek Singharoy. “Movies.” American Chemical Society, 2020. https://doi.org/10.1021/jacs.9b13450.s002.","ama":"Gupta C, Khaniya U, Chan CK, et al. Movies. 2020. doi:10.1021/jacs.9b13450.s002","ista":"Gupta C, Khaniya U, Chan CK, Dehez F, Shekhar M, Gunner MR, Sazanov LA, Chipot C, Singharoy A. 2020. Movies, American Chemical Society, 10.1021/jacs.9b13450.s002.","apa":"Gupta, C., Khaniya, U., Chan, C. K., Dehez, F., Shekhar, M., Gunner, M. R., … Singharoy, A. (2020). Movies. American Chemical Society. https://doi.org/10.1021/jacs.9b13450.s002","ieee":"C. Gupta et al., “Movies.” American Chemical Society, 2020."},"date_published":"2020-05-20T00:00:00Z","doi":"10.1021/jacs.9b13450.s002"},{"type":"journal_article","abstract":[{"text":"Complex I is the first and the largest enzyme of respiratory chains in bacteria and mitochondria. The mechanism which couples spatially separated transfer of electrons to proton translocation in complex I is not known. Here we report five crystal structures of T. thermophilus enzyme in complex with NADH or quinone-like compounds. We also determined cryo-EM structures of major and minor native states of the complex, differing in the position of the peripheral arm. Crystal structures show that binding of quinone-like compounds (but not of NADH) leads to a related global conformational change, accompanied by local re-arrangements propagating from the quinone site to the nearest proton channel. Normal mode and molecular dynamics analyses indicate that these are likely to represent the first steps in the proton translocation mechanism. Our results suggest that quinone binding and chemistry play a key role in the coupling mechanism of complex I.","lang":"eng"}],"issue":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8318","ddc":["570"],"title":"Key role of quinone in the mechanism of respiratory complex I","status":"public","intvolume":" 11","file":[{"checksum":"52b96f41d7d0db9728064c08da00d030","success":1,"date_created":"2020-08-31T13:40:00Z","date_updated":"2020-08-31T13:40:00Z","relation":"main_file","file_id":"8326","content_type":"application/pdf","file_size":7527373,"creator":"cziletti","access_level":"open_access","file_name":"2020_NatComm_Gutierrez-Fernandez.pdf"}],"oa_version":"Published Version","scopus_import":"1","day":"18","article_processing_charge":"No","has_accepted_license":"1","publication":"Nature Communications","citation":{"ama":"Gutierrez-Fernandez J, Kaszuba K, Minhas GS, et al. Key role of quinone in the mechanism of respiratory complex I. Nature Communications. 2020;11(1). doi:10.1038/s41467-020-17957-0","apa":"Gutierrez-Fernandez, J., Kaszuba, K., Minhas, G. S., Baradaran, R., Tambalo, M., Gallagher, D. T., & Sazanov, L. A. (2020). Key role of quinone in the mechanism of respiratory complex I. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-17957-0","ieee":"J. Gutierrez-Fernandez et al., “Key role of quinone in the mechanism of respiratory complex I,” Nature Communications, vol. 11, no. 1. Springer Nature, 2020.","ista":"Gutierrez-Fernandez J, Kaszuba K, Minhas GS, Baradaran R, Tambalo M, Gallagher DT, Sazanov LA. 2020. Key role of quinone in the mechanism of respiratory complex I. Nature Communications. 11(1), 4135.","short":"J. Gutierrez-Fernandez, K. Kaszuba, G.S. Minhas, R. Baradaran, M. Tambalo, D.T. Gallagher, L.A. Sazanov, Nature Communications 11 (2020).","mla":"Gutierrez-Fernandez, Javier, et al. “Key Role of Quinone in the Mechanism of Respiratory Complex I.” Nature Communications, vol. 11, no. 1, 4135, Springer Nature, 2020, doi:10.1038/s41467-020-17957-0.","chicago":"Gutierrez-Fernandez, Javier, Karol Kaszuba, Gurdeep S. Minhas, Rozbeh Baradaran, Margherita Tambalo, David T. Gallagher, and Leonid A Sazanov. “Key Role of Quinone in the Mechanism of Respiratory Complex I.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-17957-0."},"article_type":"original","date_published":"2020-08-18T00:00:00Z","article_number":"4135","file_date_updated":"2020-08-31T13:40:00Z","license":"https://creativecommons.org/licenses/by/4.0/","year":"2020","acknowledgement":"This work was funded by the Medical Research Council, UK and IST Austria. We thank the European Synchrotron Radiation Facility and the Diamond Light Source for provision of synchrotron radiation facilities. We are grateful to the staff of beamlines ID29, ID23-2 (ESRF, Grenoble, France) and I03 (Diamond Light Source, Didcot, UK) for assistance. Data processing was performed at the IST high-performance computing cluster.","pmid":1,"publication_status":"published","department":[{"_id":"LeSa"}],"publisher":"Springer Nature","author":[{"first_name":"Javier","last_name":"Gutierrez-Fernandez","id":"3D9511BA-F248-11E8-B48F-1D18A9856A87","full_name":"Gutierrez-Fernandez, Javier"},{"id":"3FDF9472-F248-11E8-B48F-1D18A9856A87","last_name":"Kaszuba","first_name":"Karol","full_name":"Kaszuba, Karol"},{"last_name":"Minhas","first_name":"Gurdeep S.","full_name":"Minhas, Gurdeep S."},{"first_name":"Rozbeh","last_name":"Baradaran","full_name":"Baradaran, Rozbeh"},{"full_name":"Tambalo, Margherita","id":"4187dfe4-ec23-11ea-ae46-f08ab378313a","first_name":"Margherita","last_name":"Tambalo"},{"full_name":"Gallagher, David T.","first_name":"David T.","last_name":"Gallagher"},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","first_name":"Leonid A","last_name":"Sazanov","full_name":"Sazanov, Leonid A"}],"related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/mystery-of-giant-proton-pump-solved/"}]},"date_created":"2020-08-30T22:01:10Z","date_updated":"2023-08-22T09:03:00Z","volume":11,"month":"08","publication_identifier":{"eissn":["20411723"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000607072900001"],"pmid":["32811817"]},"isi":1,"quality_controlled":"1","doi":"10.1038/s41467-020-17957-0","language":[{"iso":"eng"}]},{"issue":"9","abstract":[{"lang":"eng","text":"Copper (Cu) is an essential trace element for all living organisms and used as cofactor in key enzymes of important biological processes, such as aerobic respiration or superoxide dismutation. However, due to its toxicity, cells have developed elaborate mechanisms for Cu homeostasis, which balance Cu supply for cuproprotein biogenesis with the need to remove excess Cu. This review summarizes our current knowledge on bacterial Cu homeostasis with a focus on Gram-negative bacteria and describes the multiple strategies that bacteria use for uptake, storage and export of Cu. We furthermore describe general mechanistic principles that aid the bacterial response to toxic Cu concentrations and illustrate dedicated Cu relay systems that facilitate Cu delivery for cuproenzyme biogenesis. Progress in understanding how bacteria avoid Cu poisoning while maintaining a certain Cu quota for cell proliferation is of particular importance for microbial pathogens because Cu is utilized by the host immune system for attenuating pathogen survival in host cells."}],"type":"journal_article","file":[{"date_created":"2020-09-28T11:36:50Z","date_updated":"2020-09-28T11:36:50Z","success":1,"checksum":"ceb43d7554e712dea6f36f9287271737","file_id":"8583","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":4612258,"file_name":"2020_Membranes_Andrei.pdf","access_level":"open_access"}],"oa_version":"Published Version","intvolume":" 10","title":"Cu homeostasis in bacteria: The ins and outs","status":"public","ddc":["570"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8579","has_accepted_license":"1","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2020-09-01T00:00:00Z","article_type":"original","citation":{"ieee":"A. Andrei et al., “Cu homeostasis in bacteria: The ins and outs,” Membranes, vol. 10, no. 9. MDPI, 2020.","apa":"Andrei, A., Öztürk, Y., Khalfaoui-Hassani, B., Rauch, J., Marckmann, D., Trasnea, P. I., … Koch, H.-G. (2020). Cu homeostasis in bacteria: The ins and outs. Membranes. MDPI. https://doi.org/10.3390/membranes10090242","ista":"Andrei A, Öztürk Y, Khalfaoui-Hassani B, Rauch J, Marckmann D, Trasnea PI, Daldal F, Koch H-G. 2020. Cu homeostasis in bacteria: The ins and outs. Membranes. 10(9), 242.","ama":"Andrei A, Öztürk Y, Khalfaoui-Hassani B, et al. Cu homeostasis in bacteria: The ins and outs. Membranes. 2020;10(9). doi:10.3390/membranes10090242","chicago":"Andrei, Andreea, Yavuz Öztürk, Bahia Khalfaoui-Hassani, Juna Rauch, Dorian Marckmann, Petru Iulian Trasnea, Fevzi Daldal, and Hans-Georg Koch. “Cu Homeostasis in Bacteria: The Ins and Outs.” Membranes. MDPI, 2020. https://doi.org/10.3390/membranes10090242.","short":"A. Andrei, Y. Öztürk, B. Khalfaoui-Hassani, J. Rauch, D. Marckmann, P.I. Trasnea, F. Daldal, H.-G. Koch, Membranes 10 (2020).","mla":"Andrei, Andreea, et al. “Cu Homeostasis in Bacteria: The Ins and Outs.” Membranes, vol. 10, no. 9, 242, MDPI, 2020, doi:10.3390/membranes10090242."},"publication":"Membranes","file_date_updated":"2020-09-28T11:36:50Z","article_number":"242","volume":10,"date_updated":"2023-08-22T09:34:06Z","date_created":"2020-09-28T08:59:26Z","author":[{"full_name":"Andrei, Andreea","last_name":"Andrei","first_name":"Andreea"},{"full_name":"Öztürk, Yavuz","first_name":"Yavuz","last_name":"Öztürk"},{"first_name":"Bahia","last_name":"Khalfaoui-Hassani","full_name":"Khalfaoui-Hassani, Bahia"},{"first_name":"Juna","last_name":"Rauch","full_name":"Rauch, Juna"},{"last_name":"Marckmann","first_name":"Dorian","full_name":"Marckmann, Dorian"},{"full_name":"Trasnea, Petru Iulian","id":"D560034C-10C4-11EA-ABF4-A4B43DDC885E","last_name":"Trasnea","first_name":"Petru Iulian"},{"last_name":"Daldal","first_name":"Fevzi","full_name":"Daldal, Fevzi"},{"full_name":"Koch, Hans-Georg","last_name":"Koch","first_name":"Hans-Georg"}],"department":[{"_id":"LeSa"}],"publisher":"MDPI","publication_status":"published","year":"2020","publication_identifier":{"eissn":["20770375"]},"month":"09","language":[{"iso":"eng"}],"doi":"10.3390/membranes10090242","quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000581446000001"]},"oa":1},{"scopus_import":"1","day":"01","article_processing_charge":"No","article_type":"original","page":"1077-1085","publication":"Nature Structural and Molecular Biology","citation":{"ama":"Pinke G, Zhou L, Sazanov LA. Cryo-EM structure of the entire mammalian F-type ATP synthase. Nature Structural and Molecular Biology. 2020;27(11):1077-1085. doi:10.1038/s41594-020-0503-8","apa":"Pinke, G., Zhou, L., & Sazanov, L. A. (2020). Cryo-EM structure of the entire mammalian F-type ATP synthase. Nature Structural and Molecular Biology. Springer Nature. https://doi.org/10.1038/s41594-020-0503-8","ieee":"G. Pinke, L. Zhou, and L. A. Sazanov, “Cryo-EM structure of the entire mammalian F-type ATP synthase,” Nature Structural and Molecular Biology, vol. 27, no. 11. Springer Nature, pp. 1077–1085, 2020.","ista":"Pinke G, Zhou L, Sazanov LA. 2020. Cryo-EM structure of the entire mammalian F-type ATP synthase. Nature Structural and Molecular Biology. 27(11), 1077–1085.","short":"G. Pinke, L. Zhou, L.A. Sazanov, Nature Structural and Molecular Biology 27 (2020) 1077–1085.","mla":"Pinke, Gergely, et al. “Cryo-EM Structure of the Entire Mammalian F-Type ATP Synthase.” Nature Structural and Molecular Biology, vol. 27, no. 11, Springer Nature, 2020, pp. 1077–85, doi:10.1038/s41594-020-0503-8.","chicago":"Pinke, Gergely, Long Zhou, and Leonid A Sazanov. “Cryo-EM Structure of the Entire Mammalian F-Type ATP Synthase.” Nature Structural and Molecular Biology. Springer Nature, 2020. https://doi.org/10.1038/s41594-020-0503-8."},"date_published":"2020-11-01T00:00:00Z","type":"journal_article","abstract":[{"text":"The majority of adenosine triphosphate (ATP) powering cellular processes in eukaryotes is produced by the mitochondrial F1Fo ATP synthase. Here, we present the atomic models of the membrane Fo domain and the entire mammalian (ovine) F1Fo, determined by cryo-electron microscopy. Subunits in the membrane domain are arranged in the ‘proton translocation cluster’ attached to the c-ring and a more distant ‘hook apparatus’ holding subunit e. Unexpectedly, this subunit is anchored to a lipid ‘plug’ capping the c-ring. We present a detailed proton translocation pathway in mammalian Fo and key inter-monomer contacts in F1Fo multimers. Cryo-EM maps of F1Fo exposed to calcium reveal a retracted subunit e and a disassembled c-ring, suggesting permeability transition pore opening. We propose a model for the permeability transition pore opening, whereby subunit e pulls the lipid plug out of the c-ring. Our structure will allow the design of drugs for many emerging applications in medicine.","lang":"eng"}],"issue":"11","title":"Cryo-EM structure of the entire mammalian F-type ATP synthase","status":"public","intvolume":" 27","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8581","oa_version":"None","month":"11","publication_identifier":{"eissn":["15459985"],"issn":["15459993"]},"isi":1,"quality_controlled":"1","external_id":{"pmid":["32929284"],"isi":["000569299400004"]},"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"ScienComp"}],"language":[{"iso":"eng"}],"doi":"10.1038/s41594-020-0503-8","publication_status":"published","publisher":"Springer Nature","department":[{"_id":"LeSa"}],"acknowledgement":"We thank J. Novacek from CEITEC (Brno, Czech Republic) for assistance with collecting the FEI Krios dataset and iNEXT for providing access to CEITEC. We thank the IST Austria EM facility for access and assistance with collecting the FEI Glacios dataset. Data processing was performed at the IST high-performance computing cluster. This work has been supported by iNEXT EM HEDC (proposal 4506), funded by the Horizon 2020 Programme of the European Commission.","year":"2020","pmid":1,"date_updated":"2023-08-22T09:33:09Z","date_created":"2020-09-28T08:59:27Z","volume":27,"author":[{"last_name":"Pinke","first_name":"Gergely","id":"4D5303E6-F248-11E8-B48F-1D18A9856A87","full_name":"Pinke, Gergely"},{"first_name":"Long","last_name":"Zhou","id":"3E751364-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1864-8951","full_name":"Zhou, Long"},{"full_name":"Sazanov, Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","first_name":"Leonid A","last_name":"Sazanov"}],"related_material":{"link":[{"url":"https://ist.ac.at/en/news/structure-of-atpase-solved/","description":"News on IST Homepage","relation":"press_release"}]}}]