Y. Umena, K. Kawakami, J. Shen, and N. Kamiya, Crystal structure of oxygen-evolving photosystem II at a resolution of 1.9?????, Nature, vol.50, issue.7345, pp.55-60, 2011.
DOI : 10.1107/S090744499300808X

M. Suga, F. Akita, K. Hirata, G. Ueno, H. Murakami et al., Native structure of photosystem II at 1.95???? resolution viewed by femtosecond X-ray pulses, Nature, vol.66, issue.7532, pp.99-103, 2015.
DOI : 10.1107/S0907444909052925

T. J. Wydrzynski and K. Satoh, Photosystem II, The Light-Driven Water: Plastoquinone Oxidoreductase, 2005.

J. Shen, The Structure of Photosystem II and the Mechanism of Water Oxidation in Photosynthesis, Annual Review of Plant Biology, vol.66, issue.1, pp.23-48, 2015.
DOI : 10.1146/annurev-arplant-050312-120129

K. Kawakami, Y. Umena, N. Kamiya, and J. Shen, Structure of the catalytic, inorganic core of oxygen-evolving photosystem II at 1.9?? resolution, Journal of Photochemistry and Photobiology B: Biology, vol.104, issue.1-2, pp.9-18, 2011.
DOI : 10.1016/j.jphotobiol.2011.03.017

S. S. Golden, Light-responsive gene expression in cyanobacteria., Journal of Bacteriology, vol.177, issue.7, pp.1651-1654, 1995.
DOI : 10.1128/jb.177.7.1651-1654.1995

M. R. Schaefer and S. Golden, Light availability influences the ratio of two forms of D1 in cyanobacterial thylakoids, J. Biol. Chem, vol.264, pp.7412-7417, 1989.

M. R. Schaefer and S. S. Golden, Differential expression of members of a cyanobacterial psbA gene family in response to light., Journal of Bacteriology, vol.171, issue.7, pp.3973-3981, 1989.
DOI : 10.1128/jb.171.7.3973-3981.1989

S. Bustos, M. Schaefer, and S. Golden, Different and rapid responses of four cyanobacterial psbA transcripts to changes in light intensity., Journal of Bacteriology, vol.172, issue.4, 1990.
DOI : 10.1128/jb.172.4.1998-2004.1990

D. Campbell, M. J. Eriksson, G. Öquist, P. Gustafsson, C. et al., The cyanobacterium Synechococcus resists UV-B by exchanging photosystem II reaction-center D1 proteins, Proceedings of the National Academy of Sciences, vol.33, issue.3, pp.364-369, 1998.
DOI : 10.1111/j.0022-3646.1997.00215.x

C. I. Sicora, S. E. Appleton, C. M. Brown, J. Chung, J. Chandler et al., Cyanobacterial psbA families in Anabaena and Synechocystis encode trace, constitutive and UVB-induced D1 isoforms, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1757, issue.1, pp.47-56, 2006.
DOI : 10.1016/j.bbabio.2005.11.002

D. Campbell, G. Zhou, P. Gustafsson, G. Oquist, C. et al., Electron transport regulates exchange of two forms of photosystem II D1 protein in the cyanobacterium Synechococcus, EMBO J, vol.14, pp.5457-5466, 1995.

K. Sippola and E. Aro, Thiol redox state regulates expression of psbA genes in Synechococcus sp. PCC 7942, Plant Molecular Biology, vol.41, issue.3, pp.425-433, 1999.
DOI : 10.1023/A:1006347808475

C. I. Sicora, F. M. Ho, T. Salminen, S. Styring, and E. Aro, Transcription of a ???silent??? cyanobacterial psbA gene is induced by microaerobic conditions, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1787, issue.2, pp.105-112, 2009.
DOI : 10.1016/j.bbabio.2008.12.002

P. Mulo, C. Sicora, and E. Aro, Cyanobacterial psbA gene family: optimization of oxygenic photosynthesis, Cellular and Molecular Life Sciences, vol.3, issue.23, pp.3697-3710, 2009.
DOI : 10.1039/B406695B

Y. Nakamura, T. Kaneko, S. Sato, M. Ikeuchi, H. Katoh et al., Complete Genome Structure of the Thermophilic Cyanobacterium Thermosynechococcus elongatus BP-1, DNA Research, vol.9, issue.4, pp.123-130, 2002.
DOI : 10.1093/dnares/9.4.123

P. B. Kós, Z. Deák, O. Cheregi, and I. Vass, Differential regulation of psbA and psbD gene expression, and the role of the different D1 protein copies in the cyanobacterium Thermosynechococcus elongatus BP-1, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1777, issue.1, pp.74-83, 2008.
DOI : 10.1016/j.bbabio.2007.10.015

J. Sander, M. Nowaczyk, M. Kopczak, and M. Rögner, Role of the psbA Gene Family of PSII from the Thermophilic Cyanobacterium Thermosynechococcus elongatus, Photosynthesis. Energy from the Sun, pp.745-748, 2008.
DOI : 10.1007/978-1-4020-6709-9_166

M. Sugiura and A. Boussac, Some Photosystem II properties depending on the D1 protein variants in Thermosynechococcus elongatus, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1837, issue.9, pp.1427-1434, 2014.
DOI : 10.1016/j.bbabio.2013.12.011

M. Sugiura and A. Boussac, Variants of photosystem II D1 protein in Thermosynechococcus elongatus, Research on Chemical Intermediates, vol.1797, issue.9, pp.3219-3229, 2014.
DOI : 10.1016/j.bbabio.2009.07.007

M. Sugiura, S. Ogami, M. Kusumi, S. Un, F. Rappaport et al., in which PsbA2 Is the D1 Protein, Journal of Biological Chemistry, vol.3, issue.16, pp.13336-13347, 2012.
DOI : 10.1021/ja076130q

M. Sugiura, A. Boussac, T. Noguchi, R. , and F. , Corrigendum to "Influence of Histidine-198 of the D1 subunit on the properties of the primary electron donor, P 680 , of photosystem II in Thermosynechococcus elongatus", Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1857, issue.12, pp.331-342, 2008.
DOI : 10.1016/j.bbabio.2016.09.012

URL : https://hal.archives-ouvertes.fr/hal-01451639

M. Sugiura, Y. Ozaki, M. Nakamura, N. Cox, F. Rappaport et al., The D1-173 amino acid is a structural determinant of the critical interaction between D1-Tyr161 (Tyr Z ) and D1-His190 in Photosystem II, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1837, issue.12, pp.1922-1931, 2014.
DOI : 10.1016/j.bbabio.2014.08.008

M. Sugiura, Y. Kato, R. Takahashi, H. Suzuki, T. Watanabe et al., Energetics in Photosystem II from Thermosynechococcus elongatus with a D1 protein encoded by either the psbA1 or psbA3 gene, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1797, issue.8, pp.1491-1499, 2010.
DOI : 10.1016/j.bbabio.2010.03.022

A. Boussac, M. Sugiura, R. , and F. , Probing the quinone binding site of Photosystem II from Thermosynechococcus elongatus containing either PsbA1 or PsbA3 as the D1 protein through the binding characteristics of herbicides, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1807, issue.1, pp.119-129, 2010.
DOI : 10.1016/j.bbabio.2010.10.004

URL : https://hal.archives-ouvertes.fr/hal-00720039

A. Boussac, K. Koyama, and M. Sugiura, The Tll0287 protein is a hemoprotein associated with the PsbA2-Photosystem II complex in Thermosynechococcus elongatus, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1827, issue.10, pp.1174-1182, 2013.
DOI : 10.1016/j.bbabio.2013.06.002

P. L. Dutton, [23] Redox potentiometry: Determination of midpoint potentials of oxidation-reduction components of biological electron-transfer systems, Methods Enzymol, vol.54, pp.411-435, 1978.
DOI : 10.1016/S0076-6879(78)54026-3

C. A. Kerfeld, S. Yoshida, K. T. Tran, T. O. Yeates, D. Cascio et al., The 1.6???? resolution structure of Fe-superoxide dismutase from the thermophilic cyanobacterium Thermosynechococcus elongatus, JBIC Journal of Biological Inorganic Chemistry, vol.288, issue.7, pp.707-714, 2003.
DOI : 10.1006/bbrc.2001.5752

C. A. Kerfeld, M. R. Sawaya, H. Bottin, K. T. Tran, M. Sugiura et al., Structural and EPR Characterization of the Soluble Form of Cytochrome c-550 and of the psbV2 Gene Product from the Cyanobacterium Thermosynechococcus elongatus, Plant and Cell Physiology, vol.44, issue.7, pp.697-706, 2003.
DOI : 10.1021/ja00335a003

F. Grein, S. S. Venceslau, L. Schneider, P. Hildebrandt, S. Todorovic et al., DsrJ, an essential part of the DsrMKJOP transmembrane complex in the purple sulfur bacterium Allochromatium vinosum, is an unusual trihem cytochrome c, Biochemistry, vol.49, pp.8920-8299, 2010.

S. Ukita, T. Fujii, D. Hira, T. Nishiyama, T. Kawase et al., A heterodimeric cytochrome c???complex with a very low redox potential from an anaerobic ammonium-oxidizing enrichment culture, FEMS Microbiology Letters, vol.257, issue.1, pp.61-67, 2010.
DOI : 10.2521/jswtb.38.87

U. Kappler and M. J. Maher, The bacterial SoxAX cytochromes, Cellular and Molecular Life Sciences, vol.271, issue.5254, pp.977-993, 2013.
DOI : 10.1126/science.271.5254.1406

G. Vandriessche, B. Devreese, J. C. Fitch, T. E. Meyer, M. A. Cusanovich et al., and other proteobacteria, FEBS Journal, vol.210, issue.12, pp.2801-2811, 2006.
DOI : 10.1042/bj1310485

H. Katoh, S. Itoh, J. Shen, and M. Ikeuchi, Functional Analysis of psbV and a Novel c-type Cytochrome Gene psbV2 of the Thermophilic Cyanobacterium Thermosynechococcuselongatus Strain BP-1, Plant and Cell Physiology, vol.42, issue.6, pp.599-607, 2001.
DOI : 10.1093/oxfordjournals.pcp.a075684

J. Peisach, W. E. Blumberg, and A. Adler, ELECTRON PARAMAGNETIC RESONANCE STUDIES OF IRON PORPHIN AND CHLORIN SYSTEMS, Annals of the New York Academy of Sciences, vol.36, issue.1 The Chemical, pp.310-327, 1973.
DOI : 10.1002/j.1538-7305.1957.tb02406.x

F. A. Walker, Magnetic spectroscopic (EPR, ESEEM, M??ssbauer, MCD and NMR) studies of low-spin ferriheme centers and their corresponding heme proteins, Coordination Chemistry Reviews, vol.185, issue.186, pp.471-534, 1999.
DOI : 10.1016/S0010-8545(99)00029-6

M. Meier, M. Janosik, V. Kery, J. P. Kraus, and P. Burkhard, Structure of human cystathionine beta-synthase: a unique pyridoxal 5'-phosphate-dependent heme protein, The EMBO Journal, vol.20, issue.15, pp.3910-3916, 2001.
DOI : 10.1093/emboj/20.15.3910

J. Santolini, P. C. Moody, J. S. Mitcheson, N. W. Davies, R. Schmid et al., A heme-binding domain controls regulation of ATP-dependent potassium channels, Proc. Natl. Acad. Sci. USA, pp.3785-3790, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01457180

I. Diaz-moreno, R. Hulsker, P. Skubak, J. M. Foerster, D. Cavazzini et al., The dynamic complex of cytochrome c6 and cytochrome f studied with paramagnetic NMR spectroscopy, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1837, issue.8, pp.1305-1315, 2014.
DOI : 10.1016/j.bbabio.2014.03.009

A. T. Smith, K. A. Marvin, K. M. Freeman, R. L. Kerby, G. P. Roberts et al., Identification of Cys94 as the distal ligand to the Fe(III) heme in the transcriptional regulator RcoM-2 from Burkholderia xenovorans, JBIC Journal of Biological Inorganic Chemistry, vol.282, issue.7, pp.1071-1082, 2012.
DOI : 10.1074/jbc.M701920200

F. Zhong, G. P. Lisi, D. P. Collins, J. H. Dawson, and E. V. Pletneva, Redox-dependent stability, protonation, and reactivity of cysteine-bound heme proteins, Proc. Natl. Acad. Sci. USA, pp.306-315, 2014.
DOI : 10.1002/1439-7633(20011105)2:11<831::AID-CBIC831>3.0.CO;2-W

L. Holm, R. , and P. , Dali server: conservation mapping in 3D, Nucleic Acids Research, vol.29, issue.suppl_2, pp.545-549, 2010.
DOI : 10.1016/j.it.2007.11.003

R. Wu, M. Gu, R. Wilton, G. Babnigg, Y. Kim et al., histidine kinase, KinD, Protein Science, vol.103, issue.5, pp.564-576, 2013.
DOI : 10.1073/pnas.0605224103

J. Cheung and W. A. Hendrickson, Sensor domains of two-component regulatory systems, Current Opinion in Microbiology, vol.13, issue.2, pp.116-123, 2010.
DOI : 10.1016/j.mib.2010.01.016

E. C. Hoffman, H. Reyes, F. Chu, F. Sander, L. H. Conley et al., Cloning of a factor required for activity of the Ah (dioxin) receptor, Science, vol.252, issue.5008, pp.954-958, 1991.
DOI : 10.1126/science.1852076

J. R. Nambu, J. O. Lewis, K. A. Wharton, and S. T. Crews, The Drosophila single-minded gene encodes a helix-loop-helix protein that acts as a master regulator of CNS midline development, Cell, vol.67, issue.6, pp.1157-1167, 1991.
DOI : 10.1016/0092-8674(91)90292-7

J. C. Dunlap, GENETIC AND MOLECULAR ANALYSIS OF CIRCADIAN RHYTHMS, Annual Review of Genetics, vol.30, issue.1, pp.579-601, 1996.
DOI : 10.1146/annurev.genet.30.1.579

B. L. Taylor and I. B. Zhulin, PAS domains: internal sensors of oxygen, redox potential, and light. Microb, Mol. Biol. Rev, vol.63, pp.479-506, 1999.

S. K. Crosthwaite, J. C. Dunlap, L. , and J. J. , Neurospora wc-1 and wc-2: Transcription, Photoresponses, and the Origins of Circadian Rhythmicity, Science, vol.276, issue.5313, pp.763-769, 1997.
DOI : 10.1126/science.276.5313.763

J. H. Cabral, A. Lee, S. L. Cohen, B. T. Chait, M. Li et al., Crystal Structure and Functional Analysis of the HERG Potassium Channel N Terminus, Cell, vol.95, issue.5, pp.649-655, 1998.
DOI : 10.1016/S0092-8674(00)81635-9

A. Möglich, R. A. Ayers, and K. Moffat, Structure and Signaling Mechanism of Per-ARNT-Sim Domains, Structure, vol.17, issue.10, pp.1282-1294, 2009.
DOI : 10.1016/j.str.2009.08.011

J. T. Henry and S. Crosson, Ligand-Binding PAS Domains in a Genomic, Cellular, and Structural Context, Annual Review of Microbiology, vol.65, issue.1, pp.261-286, 2011.
DOI : 10.1146/annurev-micro-121809-151631

H. Kneuper, P. Scheu, M. Etzkorn, M. Sevvana, P. Dünnwald et al., Sensing ligands by periplasmic sensing histidine kinases with sensory PAS domains, Sensory Mechanisms in Bacteria: Molecular Aspects of Signal Recognition, 2010.

G. D. Glekas, B. J. Mulhern, A. Kroc, K. A. Duelfer, V. Lei et al., Chemoreceptor McpC Senses Multiple Ligands Using Two Discrete Mechanisms, Journal of Biological Chemistry, vol.129, issue.47, pp.39412-39418, 2012.
DOI : 10.1038/emboj.2010.224

URL : http://www.jbc.org/content/287/47/39412.full.pdf

G. Langer, S. X. Cohen, V. S. Lamzin, and A. Perrakis, Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7, Nature Protocols, vol.60, issue.7, pp.1171-1179, 2008.
DOI : 10.1038/nprot.2008.91

L. A. Kelley, S. Mezulis, C. M. Yates, M. N. Wass, and M. J. Sternberg, The Phyre2 web portal for protein modeling, prediction and analysis, Nature Protocols, vol.1, issue.6, pp.845-858, 2015.
DOI : 10.1093/bioinformatics/btl677

P. R. Pokkuluri, M. Pessanha, Y. Y. Londer, S. J. Wood, N. E. Duke et al., Structures and Solution Properties of Two Novel Periplasmic Sensor Domains with c-Type Heme from Chemotaxis Proteins of Geobacter sulfurreducens: Implications for Signal Transduction, Journal of Molecular Biology, vol.377, issue.5, pp.1498-1517, 2008.
DOI : 10.1016/j.jmb.2008.01.087

B. Arieli, Y. Shahak, D. Taglicht, G. Hauska, and E. Padan, Purification and characterisation of sulfide-quinone reductase, a novel enzyme driving anoxygenic photosynthesis in Oscillatoria limnetica, J. Biol. Chem, vol.269, pp.5705-5711, 1994.

W. G. Touw, C. Baakman, J. Black, T. A. Te-beek, E. Krieger et al., A series of PDB-related databanks for everyday needs, Nucleic Acids Research, vol.38, issue.D1, pp.43-364, 2015.
DOI : 10.1093/nar/gkq453

W. Kabsch and C. Sander, Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features, Biopolymers, vol.33, issue.12, pp.2577-2637, 1983.
DOI : 10.1016/0005-2795(73)90350-4

G. M. Sheldrick, : combining chain tracing with density modification, Acta Crystallographica Section D Biological Crystallography, vol.46, issue.4, pp.479-485, 2010.
DOI : 10.1107/S0907444909038360

URL : http://journals.iucr.org/d/issues/2010/04/00/ba5143/ba5143.pdf

G. Bricogne, C. Vonrhein, C. Flensburg, M. Schiltz, and W. Paciorek, 2.0, Acta Crystallographica Section D Biological Crystallography, vol.59, issue.11, pp.2023-2030, 2003.
DOI : 10.1107/S0907444903017694

C. Vonrhein, E. Blanc, P. Roversi, and G. Bricogne, Automated Structure Solution With autoSHARP, Macromolecular crystallography protocols, pp.215-230, 2007.
DOI : 10.1385/1-59745-266-1:215

P. Emsley and K. Cowtan, : model-building tools for molecular graphics, Acta Crystallographica Section D Biological Crystallography, vol.60, issue.12, pp.2126-2132, 2004.
DOI : 10.1107/S0907444904019158

URL : http://journals.iucr.org/d/issues/2004/12/01/ba5070/ba5070.pdf

P. D. Adams, P. V. Afonine, G. Bunkóczi, V. B. Chen, I. W. Davis et al., : a comprehensive Python-based system for macromolecular structure solution, Acta Crystallographica Section D Biological Crystallography, vol.64, issue.2, pp.213-221, 2010.
DOI : 10.1107/S0907444909052925

V. B. Chen, W. B. Arendall, J. J. Headd, D. A. Keedy, R. M. Immormino et al., : all-atom structure validation for macromolecular crystallography, Acta Crystallographica Section D Biological Crystallography, vol.285, issue.1, pp.12-21, 2010.
DOI : 10.1107/S0907444909042073

M. D. Winn, C. C. Ballard, K. D. Cowtan, E. J. Dodson, P. Emsley et al., 4 suite and current developments, Acta Crystallographica Section D Biological Crystallography, vol.65, issue.4, pp.235-242, 2011.
DOI : 10.1107/S0907444909037044

S. F. Altschul, T. L. Madden, A. A. Schäffer, J. Zhang, Z. Zhang et al., Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Research, vol.25, issue.17, pp.3389-3402, 1997.
DOI : 10.1093/nar/25.17.3389

E. Krissinel and K. Henrick, Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions, Acta Crystallographica Section D Biological Crystallography, vol.60, issue.12, pp.2256-2268, 2004.
DOI : 10.1107/S0907444904026460