Publications
2011
Experimental data
Vinzenz X, Grosse W, Linne U, Meissner B, Essen LO. "Chemical engineering of Mycobacterium tuberculosis dodecin hybrids." (2011) Chem. Commun. 47, 11071-11073. [UV-vis Absorption/Fluorescence]
Regis-Faro A, Carpentier P, Jonasson G, Pompidor G, Arcizet D, Demachy I, Bourgeois D. "Low-temperature chromophore isomerization reveals the photoswitching mechanism of the fluorescent protein Padron." (2011) J. Am. Chem. Soc. 133, 16362-16365. [(on-line) UV-vis Absorption/Fluorescence]
Kiontke S, Geisselbrecht Y, Pokorny R, Carell T, Batschauer A, Essen LO. "Crystal structures of an archaeal class II DNA photolyase and its complex with UV-damaged duplex DNA." (2011) EMBO J. , in press. [on-line UV-vis Absorption]
Mailliet J, Psakis G, Feilke K, Sineshchekov V, Essen LO, Hughes J. "Spectroscopy and a high-resolution crystal structure of Tyr263 mutants of cyanobacterial phytochrome Cph1." (2011) J. Mol. Biol. 413, 115-127. [UV-vis Absorption/Fluorescence]
Orru R, Dudek HM, Martinoli C, Torres Pazmiño DE, Royant A, Weik M, Fraaije MW, Mattevi A. "Snapshots of enzymatic Baeyer-Villiger catalysis: oxygen activation and intermediate stabilization." (2011) J. Biol. Chem. 286, 29284-29291. [(on-line) UV-vis Absorption]
Rajagopal BS, Wilson MT, Bendall DS, Howe CJ, Worrall JAR. "Structural and kinetic studies of imidazole binding to two members of the cytochrome c6 family reveal an important role for a conserved heme pocket residue." (2011) J. Biol. Inorg. Chem. 16, 577-88. [UV-vis Absorption]
Royant A, Noirclerc-Savoye M. "Stabilizing role of glutamic acid 222 in the structure of Enhanced Green Fluorescent Protein." (2011) J. Struct. Biol. 174, 385-390. [UV-vis Absorption/Fluorescence/TCSPC]
Trepreau J, Girard E, Maillard AP, de Rosny E, Petit-Haertlein I, Kahn R, Covès J. "Structural basis for metal sensing by CnrX." (2011) J. Mol. Biol. 408, 766-779. [UV-vis Absorption]
Choe HW, Kim YJ, Park JH, Morizumi T, Pai EF, Krauà N, Hofmann KP, Scheerer P, Ernst OP. "Crystal structure of metarhodopsin II." (2011) Nature 471, 651-655. [UV-vis Absorption]
McGeehan JE, Bourgeois D, Royant A, Carpentier P. "Raman-assisted crystallography of biomolecules at the synchrotron: Instrumentation, methods and applications." (2011) Biochim. Biophys. Acta 1814, 750-759. [Raman]
Review or citation
Karuppasamy M, Nejadasl FK, Vulovic M, Kostera AJ, Ravelli RBG. "Radiation damage in single-particle cryo-electron microscopy: effects of dose and dose rate." (2011) J. Synchrotron Rad. 18, 398-412.
Owen RL, Yorke BA, Gowdy JA, Pearson AR. "Revealing low-dose radiation damage using single-crystal spectroscopy." (2011) J. Synchrotron Rad. 18, 367-373.
Orville AM, Buono R, Cowan M, Héroux A, Shea-McCarthy G, Schneider DK, Skinner JM, Skinner MJ, Stoner-Ma D, Sweet RM. "Correlated single-crystal electronic absorption spectroscopy and X-ray crystallography at NSLS beamline X26-C." (2011) J. Synchrotron Rad. 18, 358-366.
Juers DH, Weik M. "Similarities and differences in radiation damage at 100 K versus 160 K in a crystal of thermolysin." (2011) J. Synchrotron Rad. 18, 329-337.
Stoner-Ma D, Skinner JM, Schneider DK, Cowan M, Sweet RM, Orville AM. "Single-crystal Raman spectroscopy and X-ray crystallography at beamline X26-C of the NSLS." (2011) J. Synchrotron Rad. 18, 37-40.
Bettati S, Pasqualetto E, Lolli G, Campanini B, Battistutta R. "Structure and single crystal spectroscopy of Green Fluorescent Proteins." (2011) Biochim. Biophys. Acta 1814, 824-833.
Hersleth HP, Andersson KK. "How different oxidation states of crystalline myoglobin are influenced by X-rays." (2011) Biochim. Biophys. Acta 1814, 785-796.
Sage JT, Zhang Y, McGeehan J, Ravelli R, Weik M, van Thor JJ. "Infrared protein crystallography." (2011) Biochim. Biophys. Acta 1814, 760-777.
Carey PR, Chen Y, Gong B, Kalp M. "Kinetic crystallography by Raman microscopy." (2011) Biochim. Biophys. Acta 1814, 742-749.
Ronda L, Bruno S, Bettati S, Mozzarelli A. "Protein crystal microspectrophotometry." (2011) Biochim. Biophys. Acta 1814, 734-741.
2010
Experimental data
Bento I, Silva CS, Chen Z, Martins LO, Lindley PF, Soares CM. "Mechanisms underlying dioxygen reduction in laccases. Structural and modelling studies focusing on proton transfer." (2010) BMC Struct. Biol. 10:28. [UV-vis Absorption]
Carpentier P, Royant A, Weik M, Bourgeois D. "Raman-assisted crystallography suggests a mechanism of x-ray-induced disulfide radical formation and reparation." (2010) Structure 18, 1410-1419. [Raman]
Cavazza C, Bochot C, Rousselot-Pailley P, Carpentier P, Cherrier MV, Martin L, Marchi-Delapierre C, Fontecilla-Camps JC, Ménage S. "Crystallographic snapshots of the reaction of aromatic C-H with O2 catalysed by a protein-bound iron complex." (2010) Nat. Chem. 2, 1069-1076. [UV-vis Absorption/Raman]
Sans JA, Martinez-Criado G, Susini J, Sanz R, Jensen J, Minguez I, Hernandez-Velez M, Labrador A, Carpentier P. "Thermal instability of implanted Mn ions in ZnO." (2010) J. Appl. Phys. 107, 023507. [Raman]
Faro AR, Adam V, Carpentier P, Darnault C, Bourgeois D, de Rosny E. "Low-temperature switching by photoinduced protonation in photochromic fluorescent proteins." (2010) Photochem. Photobiol. Sci. 9, 254-262. [UV-vis Absorption/Fluorescence]
Review or citation
Garman EF. "Radiation damage in macromolecular crystallography: what is it and why should we care?" (2010) Acta Cryst. D66, 339-351.
Weik M, Colletier JP. "Temperature-dependent macromolecular X-ray crystallography." (2010) Acta Cryst. D66, 437-446.
Dierks K, Meyer A, Oberthur D, Rapp G, Einspahr H, Betzel C. "Efficient UV detection of protein crystals enabled by fluorescence excitation at wavelengths longer than 300 nm." (2010) Acta Cryst. F66, 478-484.
2009
Experimental data
Adam V, Carpentier P, Violot S, Lelimousin M, Darnault C, Nienhaus GU, Bourgeois D. "Structural basis of X-ray-induced transient photobleaching in a photoactivatable green fluorescent protein." (2009) J. Am. Chem. Soc. 131, 18063-18065. [UV-vis Absorption/Fluorescence/Raman]
Barros T, Royant A, Standfuss J, Dreuw A, Kühlbrandt W. "Crystal structure of plant light-harvesting complex shows the active, energy-transmitting state." (2009) EMBO J. 28, 298-306. [UV-vis Absorption/Fluorescence/TCSPC]
Carpentier P, Violot S, Blanchoin L, Bourgeois D. "Structural basis for the phototoxicity of the fluorescent protein KillerRed." (2009) FEBS Lett. 583, 2839-42. [UV-vis Absorption/Fluorescence]
Durin G, Delaunay A, Darnault C, Heyes DJ, Royant A, Vernède X, Hunter CN, Weik M, Bourgeois D. "Simultaneous measurements of solvent dynamics and functional kinetics in a light-activated enzyme." (2009) Biophys. J. 96, 1902-1910. [UV-vis Absorption/Fluorescence]
Howard-Jones AR, Adam V, Cowley A, Baldwin JE, Bourgeois D. "Cryophotolysis of a caged oxygen compound for use in low temperature biological studies." (2009) Photochem. Photobiol. Sci. 8, 1150-1156. [UV-vis Absorption]
Lafaye C, Iwema T, Carpentier P, Jullian-Binard C, Kroll JS, Collet JF, Serre L. "Biochemical and structural study of the homologues of the thiol-disulfide oxidoreductase DsbA in Neisseria meningitidis." (2009) J. Mol. Biol. 392, 952-966. [Raman]
Lelimousin M, Noirclerc-Savoye M, Lazareno-Saez C, Paetzold B, Le Vot S, Chazal R, Macheboeuf P, Field MJ, Bourgeois D, Royant A. "Intrinsic dynamics in ECFP and Cerulean control fluorescence quantum yield." (2009) Biochemistry 48, 10038-10046. [UV-vis Absorption/Fluorescence/TCSPC]
Mailliet J, Psakis G, Schroeder C, Kaltofen S, Dürrwang U, Hughes J, Essen LO. "Dwelling in the dark: procedures for the crystallography of phytochromes and other photochromic proteins" (2009) Acta Cryst. D65, 1232-1235. [UV-vis Absorption]
Moldt J, Pokorny R, Orth C, Linne U, Geisselbrecht Y, Marahiel MA, Essen LO, Batschauer A. "Photoreduction of the folate cofactor in members of the photolyase family." (2009) J. Biol. Chem. 284, 21670-82163. [UV-vis Absorption/Fluorescence]
Pogoryelov D, Yildiz O, Faraldo-Gómez JD, Meier T. "High-resolution structure of the rotor ring of a proton-dependent ATP synthase." (2009) Nat. Struct. Mol. Biol. 16, 1068-1073. [UV-vis Absorption]
Violot S, Carpentier P, Blanchoin L, Bourgeois D. "Reverse pH-dependence of chromophore protonation explains the large stokes shift of the red fluorescent protein mKeima." (2009) J. Am. Chem. Soc. 131, 10356-10357. [UV-vis Absorption/Fluorescence/Raman]
Review or citation
Bourgeois D, Katona G, de Rosny E, Carpentier P. "Raman-assisted x-ray crystallography for the analysis of biomolecules." (2009) Methods Mol. Biol. 544, 253-267.
Bourgeois D, Weik M. "Kinetic protein crystallography: a tool to watch proteins in action." (2009) Crystallography Reviews 15, 87-118.
Macedo S, Pechlaner M, Schmid W, Weik M, Sato K, Dennison C, Djinovic-Carugo K. "Can soaked-in scavengers protect metalloprotein active sites from reduction during data collection?" (2009) J. Synchrotron Rad. 16, 191-204.
Owen RL, Pearson AR, Meents A, Boehler P, Thominet V, Schulze-Briese C. "A new on-axis multimode spectrometer for the macromolecular crystallography beamlines of the Swiss Light Source." (2009) J. Synchrotron Rad. 16, 173-182.
McGeehan J, Ravelli RB, Murray JW, Owen RL, Cipriani F, McSweeney S, Weik M, Garman EF. "Colouring cryo-cooled crystals: online microspectrophotometry." (2009) J. Synchrotron Rad. 16, 163-172.
Garman EF, Nave C. "Radiation damage in protein crystals examined under various conditions by different methods." (2009) J. Synchrotron Rad. 16, 129-132.
Pearson AR, Owen RL. "Combining X-ray crystallography and single-crystal spectroscopy to probe enzyme mechanisms." (2009) Biochem. Soc. Trans. 37, 378-381.
2008
Experimental data
Adam V, Lelimousin M, Boehme S, Desfonds G, Nienhaus K, Field MJ, Wiedenmann J, McSweeney S, Nienhaus GU, Bourgeois D. "Structural characterization of IrisFP, an optical highlighter undergoing multiple photo-induced transformations." (2008) Proc. Natl. Acad. Sci. USA 105(47): 18343-18348. [UV-vis Absorption/Fluorescence]
Essen LO, Mailliet J, Hughes J. "The structure of a complete phytochrome sensory module in the Pr ground state." (2008) Proc. Natl. Acad. Sci. USA 105, 14709-14714. [UV-vis Absorption]
Hersleth HP, Hsiao YW, Ryde U, Görbitz CH, Andersson KK. "The crystal structure of peroxymyoglobin generated through cryoradiolytic reduction of myoglobin compound III during data collection." (2008) Biochem. J. 412, 257-264. [UV-vis Absorption]
Review or citation
Coureux PD, Fan ZP, Stojanoff V, Genick UK. "Picometer-scale conformational heterogeneity separates functional from nonfunctional states of a photoreceptor protein." (2008) Structure 16 (6): 863-872
Ellis MJ, Buffey SG, Hough MA, Hasnain SS. "On-line optical and X-ray spectroscopies with crystallography: an integrated approach for determining metalloprotein structures in functionally well defined states." (2008) J. Synchrotron Rad. 15, 433-439.
Hersleth HP, Hsiao YW, Ryde U, Görbitz CH, Andersson KK. "The influence of X-rays on the structural studies of peroxide-derived myoglobin intermediates." (2008) Chem. Biodivers. 5, 2067-2089.
Merlino A, Sica F, Mazzarella L, Zagari A, Vergara A. "Correlation between Raman and X-ray crystallography data of (Pro-Pro-Gly)10." (2008) Biophys. Chem. 137, 24-27.
Strange RW, Feiters MC. "Biological X-ray absorption spectroscopy (BioXAS): a valuable tool for the study of trace elements in the life sciences." (2008) Curr. Opin. Struct. Biol. 18, 609-616.
2007
Experimental data
Carpentier P, Royant A, Ohana J, Bourgeois D. "Advances in spectroscopic methods for biological crystals. Part 2 - Raman spectroscopy." (2007) J. Appl. Crystallogr. 40, 1113-1122. [Raman]
Colletier JP, Royant A, Specht A, Sanson B, Nachon F, Masson P, Zaccai G, Sussman JL, Goeldner M, Silman I, Bourgeois D, Weik M. "Use of a 'caged' analogue to study the traffic of choline within acetylcholinesterase by kinetic crystallography." (2007) Acta Cryst. D63, 1115-1128. [UV-vis Absorption]
Katona G, Carpentier P, Nivière V, Amara P, Adam V, Ohana J, Tsanov N, Bourgeois D. "Raman-assisted crystallography reveals End-On peroxide intermediates in a nonheme iron enzyme." (2007) Science 316, 449-453. [Raman]
McGeehan JE, Carpentier P, Royant A, Bourgeois D, Ravelli RBG. "X-ray Radiation-induced damage in DNA monitored by online Raman." (2007) J. Synchrotron Rad. 14, 97-108. [Raman]
Royant A, Carpentier P, Ohana J, McGeehan J, Paetzold B, Noirclerc-Savoye M, Vernède X, Adam V, Bourgeois D. "Advances in spectroscopic methods for biological crystals. Part 1 - Fluorescence lifetime measurements." (2007) J. Appl. Crystallogr. 40, 1105-1112. [Fluorescence/TCSPC]
Schmidt M, Patel A, Zhao Y, Reuter W. "Structural basis for the photochemistry of alpha-phycoerythrocyanin." (2007) Biochemistry 46, 416-423. [UV-vis Absorption]
Review or citation
Beitlich T, Kuhnel K, Schulze-Briese C, Shoeman RL, Schlichting I. "Cryoradiolytic reduction of crystalline heme proteins: analysis by UV-Vis spectroscopy and X-ray crystallography." (2007) J. Synchrotron Rad. 14, 11-23.
Bourgeois D, de Rosny E, Katona G. "La cristallographie cinétique : un outil pour filmer les protéines en action." (2007) Biofutur 280, 48-51.
2006
Experimental data
Marcaida MJ, Schlarb-Ridley BG, Worrall JAR, Wastl J, Evans TJ, Bendall DS, Luisi BF, Howe CJ. "Structure of cytochrome c6A, a novel dithio-cytochrome of Arabidopsis thaliana, and its reactivity with plastocyanin: Implications for function." (2006) J. Mol. Biol. 360, 968-977. [UV-vis Absorption]
Sainz G, Jakoncic J, Sieker LC, Stojanoff V, Sanishvili N, Asso M, Bertrand P, Armengaud J, Jouanneau Y. "Structure of a [2Fe-2S] ferredoxin from Rhodobacter capsulatus likely involved in Fe-S cluster biogenesis and conformational changes observed upon reduction." (2006) J. Biol. Inorg. Chem. 11, 235-246. [UV-vis Absorption]
Vernède X, Lavault B, Ohana J, Nurizzo D, Joly J, Jacquamet L, Felisaz F, Cipriani F, Bourgeois D. "UV laser-excited fluorescence as a tool for the visualization of protein crystals mounted in loops." (2006) Acta Cryst. D62, 253-261. [Fluorescence]
Williams P, Coates L, Mohammed F, Gill R, Erskine P, Bourgeois D, Wood SP, Anthony C, Cooper JB. "The 1.6 A X-ray structure of the unusual c-type cytochrome, cytochrome cL, from the methylotrophic bacterium Methylobacterium extorquens." (2006) J. Mol. Biol. 357, 151-162. [UV-vis Absorption]
Review or citation
Klink BU, Goody RS, Scheidig AJ. "A newly designed microspectrofluorometer for kinetic studies on protein crystals in combination with x-ray diffraction." (2006) Biophys. J. 91, 981-992.
2005
Review or citation
Bourgeois D, Royant A. "Advances in kinetic protein crystallography." (2005) Curr. Opin. Struct. Biol. 15, 538-547.
Bourgeois D, Weik M. "New perspectives in kinetic protein crystallography using caged compounds" (2005) in "Dynamic Studies in Biology: Phototriggers, Photoswitches and Caged Biomolecules", edited by M. Goeldner & R. Givens, pp. 410-435. Weinheim: Wiley-VCH.
Johansson T, Oswald C, Pedersen A, Tornroth S, Okvist M, Karlsson BG, Rydstrom J, Krengel U. "X-ray structure of domain I of the proton-pumping membrane protein transhydrogenase from Escherichia coli." (2005) J. Mol. Biol. 352, 299-312.
Judge RA, Swift K, Gonzalez C. "An ultraviolet fluorescence-based method for identifying and distinguishing protein crystals." (2005) Acta Cryst. D61, 60-66.
2004
Experimental data
Adam V, Royant A, Niviere V, Molina-Heredia FP, Bourgeois D. "Structure of superoxide reductase bound to ferrocyanide and active site expansion upon X-ray-induced photo-reduction." (2004) Structure 12, 1729-1740. [UV-vis Absorption]
Dias JM, Alves T, Bonifácio C, Pereira AS, Trincão J, Bourgeois D, Moura I. Romão MJ. "Structural basis for the mechanism of Ca2+ activation of the di-heme cytochrome c peroxidase from Pseudomonas nautica 617." (2004) Structure 12, 961-973. [UV-vis Absorption]
Edman K, Royant A, Larsson G, Jacobson F, Taylor T, van der Spoel D, Landau EM, Pebay-Peyroula E, Neutze R. "Deformation of helix C in the low temperature L-intermediate of bacteriorhodopsin." (2004) J. Biol. Chem. 279, 2147-2158. [UV-vis Absorption]
Jacquamet L, Ohana J, Joly J, Legrand P, Kahn R, Borel F, Pirocchi M, Charrault P, Carpentier P, Ferrer JL. "A new highly integrated sample environment for protein crystallography." (2004) Acta Cryst. D60, 888-894. [Fluorescence]
Kort R, Hellingwerf KJ, Ravelli RBG. "Initial events in the photocycle of photoactive yellow protein." (2004) J. Biol. Chem. 279, 26417-26424. [UV-vis Absorption]
Kort R, Komori H, Adachi S, Miki K, Eker A. "DNA apophotolyase from Anacystis nidulans: 1.8 A structure, 8-HDF reconstitution and X-ray-induced FAD reduction." (2004) Acta Cryst. D60, 1205-1213. [UV-vis Absorption]
Weik M, Vernède X, Royant A, Bourgeois D. "Temperature derivative fluorescence spectroscopy as a tool to study dynamical changes in protein crystals." (2004) Biophys. J. 86, 3176-3185. [Fluorescence]
Review or citation
Neutze R, Huldt G, Hajdu J, van der Spoel D. "Potential impact of an X-ray free electron laser on structural biology." (2004) Rad. Phys. Chem. 71, 905-916.
Pearson AR, Mozzarelli A, Rossi GL. "Microspectrophotometry for structural enzymology." (2004) Curr. Opin. Struct. Biol. 14, 656-662.
Powe AM, Fletcher KA, St Luce NN, Lowry M, Neal S, McCarroll ME, Oldham PB, McGown LB, Warner IM. "Molecular fluorescence, phosphorescence, and chemiluminescence spectrometry." (2004) Anal. Chem. 76, 4614-4634.
2003
Experimental data
Aragão D, Macedo S, Mitchell EP, Romão CV, Liu MY, Frazão C, Saraiva LM, Xavier AV, LeGall J, van Dongen WMAM, Hagen WR, Teixeira M, Carrondo MA, Lindley P. "Reduced hybrid cluster proteins (HCP) from Desulfovibrio desulfuricans ATCC 27774 and Desulfovibrio vulgaris (Hildenborough): X-ray structures at high resolution using synchrotron radiation." (2003) J. Biol. Inorg. Chem. 8, 540-548. [UV-vis Absorption]
Fioravanti E, Haouz A, Ursby T, Munier-Lehmann H, Delarue M, Bourgeois D. "Mycobacterium tuberculosis thymidylate kinase: Structural studies of intermediates along the reaction pathway." (2003) J. Mol. Biol. 327,1077-1092. [Fluorescence]
Kort R, Ravelli RBG, Schotte F, Bourgeois D, Crielaard W, Hellingwerf K J, Wulff M. "Characterization of photocycle intermediates in crystalline photoactive yellow protein." (2003) Photochem. Photobiol. 78, 131-137. [UV-vis Absorption]
2002
Experimental data
Bourgeois D, Vernède X, Adam V, Fioravanti E, Ursby T. "A microspectrophotometer for UV-visible absorption and fluorescence studies of protein crystals." (2002) J. Appl. Crystallogr. 35, 319-326. [UV-vis Absorption/Fluorescence]
Murray J, Garman E. "Investigation of possible free-radical scavengers and metrics for radiation damage in protein cryocrystallography." (2002) J. Synchrotron Rad. 9, 347-354. [UV-vis Absorption]
Okada T, Fujiyoshi Y, Silow M, Navarro J, Landau EM, Shichida Y. "Functional role of internal water molecules in rhodopsin revealed by X-ray crystallography." (2002) Proc. Natl. Acad. Sci. USA 99, 5982-5987. [UV-vis Absorption]
Ursby T, Weik M, Fioravanti E, Delarue M, Goeldner M, Bourgeois D. "Cryophotolysis of caged compounds: a technique for trapping intermediate states in protein crystals." (2002) Acta Cryst. D58, 607-614. [UV-vis Absorption]
Weik M, Bergès J, Raves ML, Gros P, McSweeney S, Silman I, Sussman JL, Houée-Levin C, Ravelli RBG. "Evidence for the formation of disulfide radicals in protein crystals upon X-ray irradiation." (2002) J. Synchrotron Rad. 9, 342-346. [UV-vis Absorption]
Review or citation
Prasad GS, Wahlberg M, Sridhar V, Sundaresan V, Yamaguchi M, Hatefi Y, Stout CD. "Crystal structures of transhydrogenase domain I with and without bound NADH." (2002) Biochemistry 41, 12745-12754.
2001
Experimental data
Nicolet Y, de Lacey AL, Vernède X, Fernandez VM, Hatchikian EC, Fontecilla-Camps JC. "Crystallographic and FTIR spectroscopic evidence of changes in Fe coordination upon reduction of the active site of the Fe-only hydrogenase from Desulfovibrio desulfuricans." (2001) J. Am. Chem. Soc. 123, 1596-1601. [UV-vis Absorption]
Specht A, Ursby T, Weik M, Peng L, Kroon J, Bourgeois D, Goeldner M. "Cryophotolysis of ortho-nitrobenzyl derivatives of enzyme ligands for the potential kinetic crystallography of macromolecules." (2001) Chembiochem 2, 845-848. [UV-vis Absorption]
2000
Experimental data
Royant A, Edman K, Ursby T, Pebay-Peyroula E, Landau EM, Neutze R. "Helix deformation is coupled to vectorial proton transport in the photocycle of bacteriorhodopsin." (2000) Nature 406, 645-648. [UV-vis Absorption]