{"data":{"id":"10.6084/m9.figshare.1477779","type":"dois","attributes":{"doi":"10.6084/m9.figshare.1477779","prefix":"10.6084","suffix":"m9.figshare.1477779","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Vladkova, Radka","nameType":"Personal","givenName":"Radka","familyName":"Vladkova","affiliation":[],"nameIdentifiers":[]}],"titles":[{"title":"Chlorophyll \u003ci\u003ea\u003c/i\u003e is the crucial redox sensor and transmembrane signal transmitter in the cytochrome \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e complex. Components and mechanisms of state transitions from the hydrophobic mismatch viewpoint"}],"publisher":"Taylor \u0026 Francis","container":{},"publicationYear":2016,"subjects":[{"subject":"Biophysics"},{"subject":"Biochemistry"},{"subject":"29999 Physical Sciences not elsewhere classified","subjectScheme":"FOR"},{"subject":"FOS: Physical sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Physical sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"Cell Biology"},{"subject":"39999 Chemical Sciences not elsewhere classified","subjectScheme":"FOR"},{"subject":"FOS: Chemical sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Chemical sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"Ecology"},{"subject":"FOS: Biological sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Biological sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"69999 Biological Sciences not elsewhere classified","subjectScheme":"FOR"},{"subject":"Inorganic Chemistry"},{"subject":"Computational Biology"}],"contributors":[],"dates":[{"date":"2015-07-09","dateType":"Created"},{"date":"2016-03-11","dateType":"Updated"},{"date":"2016","dateType":"Issued"}],"language":null,"types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"Dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[{"relationType":"IsSupplementTo","relatedIdentifier":"10.1080/07391102.2015.1056551","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":["136151 Bytes"],"formats":[],"version":null,"rightsList":[{"rights":"Creative Commons Attribution 4.0 International","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rightsIdentifier":"cc-by-4.0","rightsIdentifierScheme":"SPDX"}],"descriptions":[{"description":"The cytochrome (cyt) \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e complex is involved in the transmembrane redox signaling that triggers state transitions in cyanobacteria and chloroplasts. However, the components and molecular mechanisms are still unclear. In an attempt to solve this long-standing problem, we first focused on the unknown role of a single chlorophyll \u003ci\u003ea\u003c/i\u003e (Chl\u003ci\u003ea\u003c/i\u003e) in cyt \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e with a new approach based on Chl\u003ci\u003ea\u003c/i\u003e structural properties. Various \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e X-ray crystal structures were analyzed to identify their differences, which correlate with differences in Chl\u003ci\u003ea\u003c/i\u003e molecular volume. We found that the distance of the Rieske [2Fe-2S] cluster to Chl\u003ci\u003ea\u003c/i\u003e correlates with the distance between a pair of residues at the \u003ci\u003eQ\u003c/i\u003e\u003csub\u003eo\u003c/sub\u003e-site and the distance between a pair of residues at the opposite membrane side. These correlations were accompanied by the rotation of a key peripheral residue and by changes in the hydrophobic thickness of cyt \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e. Parallel analysis of cyt \u003ci\u003ebc\u003c/i\u003e\u003csub\u003e1\u003c/sub\u003e crystal structures allowed us to conclude that Chl\u003ci\u003ea\u003c/i\u003e acts as the crucial redox sensor and transmembrane signal transmitter in \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e for changes in the plastoquinone pool redox state. The hydrophobic mismatch induced by the changed hydrophobic thickness of cyt \u003ci\u003eb\u003c/i\u003e\u003csub\u003e6\u003c/sub\u003e\u003ci\u003ef\u003c/i\u003e is the driving force for the structural reorganizations of the photosynthetic apparatus during induction and the progression of state transitions in cyanobacteria and chloroplasts. A mechanism for LHCII kinase activation in chloroplasts is also proposed. Our understanding of the dynamic structural changes in \u003ci\u003ebc\u003c/i\u003e-complexes during turnover at the \u003ci\u003eQ\u003c/i\u003e\u003csub\u003eo\u003c/sub\u003e-site and state transitions is augmented by the time-sequence ordering of 56 \u003ci\u003ebc\u003c/i\u003e crystal structures.","descriptionType":"Abstract"}],"geoLocations":[],"fundingReferences":[],"xml":"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