Abstract
Photoresponsive materials are an important contemporary research area with applications in, for example, energy and catalysis. Mechanistic information on solid-state photochemical reactions has traditionally come from spectroscopy and modelling, with crystallography limited to snapshots of endpoints and long-lived intermediates. Recent advances in X-ray sources and detectors have made it possible to follow solid-state reactions in situ with dynamic single-crystal X-ray diffraction (SCXRD) methods, allowing a full set of atomic positions to be determined over the course of the reaction. These experiments provide valuable structural information that can be used to interpret spectroscopic measurements and to inform materials design and optimisation.
Solid-state linkage isomers, where small-molecule ligands such as NO, NO2−, N2 and SO2 show photo-induced changes in binding to a transition metal centre, have played a leading role in the development of dynamic SCXRD methodology, since the movement of whole atoms and the predictable temperature dependence of the excited-state lifetimes make them ideal test systems. The field of “photocrystallography”, pioneered by Coppens in the late 1990s, has developed alongside advances in instrumentation and computing and can now provide the 3D structures of species with lifetimes down to femtoseconds.
In this chapter, we will review the development of photocrystallography experiments against linkage isomer systems, from the early identification of metastable species under continuous illumination, through measuring kinetics at low temperature, to recent experiments studying species with sub-second lifetimes. We will discuss the advances in X-ray sources and instrumentation that have made dynamic SCXRD experiments possible, and we will highlight the role of kinetic modelling and complementary spectroscopy in designing experiments. Finally, we will discuss possible directions for future development and identify some of the outstanding challenges that remain to be addressed.
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Abbreviations
- 2D:
-
Two-dimensional
- 3D:
-
Three-dimensional
- bipy:
-
2,2′-Bipyridine
- BPh4:
-
Tetraphenylborate
- Bu4dien:
-
N,N,N′,N′-Tetrabutyldiethylenetriamine
- CCD:
-
Charge-coupled device
- CMOS:
-
Complementary metal-oxide-semiconductor
- dcpe :
-
1,2-Bis(dicyclohexylphosphino)ethane
- dppe :
-
1,2-Bis(diphenylphosphino)ethane
- ES:
-
Excited state
- Et4dien:
-
N,N,N′,N′-Tetraethyldiethylenetriamine
- GS :
-
Ground state
- JMAK:
-
Johnson-Mehl-Avrami-Kolmogorov
- LED :
-
Light-emitting diode
- MS1:
-
Metastable state 1
- MS2 :
-
Metastable state 2
- MX:
-
Macromolecular crystallography
- OTf:
-
Trifluoromethanesulfonate
- SCXRD :
-
Single-crystal X-ray diffraction
- SFX:
-
Serial femtosecond crystallography
- SNP :
-
Sodium nitroprusside
- TR :
-
Time resolved
- XFEL:
-
X-ray free-electron laser
References
Carducci MD, Pressprich MR, Coppens P (1997) Diffraction studies of photoexcited crystals: metastable nitrosyl-linkage isomers of sodium nitroprusside. J Am Chem Soc 119:2669–2678
S̆rajer V, Teng T-Y, Ursby T, Pradervand C, Ren Z, Adachi S-I et al (1996) Photolysis of the carbon monoxide complex of myoglobin: nanosecond time- resolved crystallography. Science 274:1726–1729
Penland RB, Lane TJ, Quagliano JV (1956) Infrared absorption spectra of inorganic coördination complexes. VII. Structural isomerism of nitro- and nitritopentamminecobalt(III) chlorides1a,b. J Am Chem Soc 78:887–889
Murmann RK, Taube H (1956) The mechanism of the formation and rearrangement of nitritocobalt(III) ammines1. J Am Chem Soc 78:4886–4890
Fraser RTM (1967) Linkage isomerism. Werner centennial. In: Advances in chemistry, vol 62. American Chemical Society, pp 295–305
Chattopadhyay T, Ghosh M, Majee A, Nethaji M, Das D (2005) Linkage isomerism in 4-(2-aminoethyl)morpholine (L) complexes of nickel (II) nitrite: X-ray single crystal structure of trans-[NiL2(NO2)2]. Polyhedron 24:1677–1681
Adell B (1944) Über die Geschwindigkeit der Umwandlung von Nitrito- in Nitropentamminkobalt(III)-chlorid. Zeitschrift für Anorganische Chem 252:272–280
Cohen MD, Schmidt GMJ (1964) 383. Topochemistry. Part I. a survey. J Chem Soc:1996–2000
Cohen MD, Schmidt GMJ, Sonntag FI (1964) 384. Topochemistry. Part II. The photochemistry of trans-cinnamic acids. J Chem Soc (Resumed):2000–2013
Ohashi Y (2013) Dynamic motion and various reaction paths of cobaloxime complexes in crystalline-state photoreaction. Crystallogr Rev 19:2–146
Ohashi Y, Sasada Y (1977) X-ray analysis of co-C bond cleavage in the crystalline state. Nature 267:142–144
Warren M, Brayshaw S, Johnson A, Schiffers S, Raithby P, Easun T et al (2009) Reversible 100% linkage isomerization in a single crystal to single crystal transformation: photocrystallographic identification of the metastable [Ni(dppe)(η1-ONO)Cl] isomer. Angew Chem 121:5821–5824
Warren MR, Easun TL, Brayshaw SK, Deeth RJ, George MW, Johnson AL et al (2014) Solid-state interconversions: unique 100% reversible transformations between the ground and metastable states in single-crystals of a series of nickel(II) nitro complexes. Chem Eur J 20:5468–5477
Hatcher LE, Warren MR, Allan DR, Brayshaw SK, Johnson AL, Fuertes S et al (2011) Metastable linkage isomerism in [Ni(Et4dien)(NO2)2]: a combined thermal and photocrystallographic structural investigation of a nitro/nitrito interconversion. Angew Chem Int Ed 50:8371–8374
Hatcher LE (2016) Raising the (metastable) bar: 100% photo-switching in [Pd(Bu4dien)(η1-NO2)]+ approaches ambient temperature. CrystEngComm 18:4180–4187
Hatcher LE, Raithby PR (2017) The impact of hydrogen bonding on 100% photo-switching in solid-state nitro-nitrito linkage isomers. CrystEngComm 19:6297–6304
Hatcher LE, Bigos EJ, Bryant MJ, MacCready EM, Robinson TP, Saunders LK et al (2014) Thermal and photochemical control of nitro-nitrito linkage isomerism in single-crystals of [Ni(medpt)(NO2)(η2-ONO)]. CrystEngComm 16:8263–8271
Sylvester SO, Cole JM (2013) Quantifying crystallographically independent optical switching dynamics in Ru-SO2 photoisomers via lock-and-key crystalline environment. J Phys Chem Lett 4:3221–3226
Cormary B, Ladeira S, Jacob K, Lacroix PG, Woike T, Schaniel D et al (2012) Structural influence on the photochromic response of a series of ruthenium mononitrosyl complexes. Inorg Chem 51:7492–7501
Warren MR, Brayshaw SK, Hatcher LE, Johnson AL, Schiffers S, Warren AJ et al (2012) Photoactivated linkage isomerism in single crystals of nickel, palladium and platinum di-nitro complexes – a photocrystallographic investigation. Dalton Trans 41:13173–13179
Atkins P, Atkins PW, Shriver DF (2006) Shriver & Atkins inorganic chemistry. W.H. Freeman
Schaniel D, Woike T (2009) Necessary conditions for the photogeneration of nitrosyl linkage isomers. Phys Chem Chem Phys 11:4391–4395
Hauser U, Oestreich V, Rohrweck HD (1977) On optical dispersion in transparent molecular systems. Zeitschrift für Phys A Hadrons Nucl 280:17–25
Woike T, Krasser W, Zöllner H, Kirchner W, Haussühl S (1993) Population dynamics of the two light induced metastable states in Na2[Fe(CN)5NO]·2H2O single crystals. Zeitschrift für Phys D Atoms Mol Clust 25:351–356
Schaniel D, Nicoul M, Woike T (2010) Ultrafast reversible ligand isomerisation in Na2[Fe(CN)5NO]·2H2O single crystals. Phys Chem Chem Phys 12:9029–9033
Coppens P, Novozhilova I, Kovalevsky A (2002) Photoinduced linkage isomers of transition-metal nitrosyl compounds and related complexes. Chem Rev 102:861–884
Schaniel D, Bendeif EE, Woike T, Böttcher HC, Pillet S (2018) Wavelength-selective photoisomerisation of nitric oxide and nitrite in a rhodium complex. CrystEngComm 20:7100–7108
Fomitchev DV, Furlani TR, Coppens P (1998) Combined X-ray diffraction and density functional study of [Ni(NO)(η5-Cp*)] in the ground and light-induced metastable states. Inorg Chem 37:1519–1526
Fomitchev DV, Coppens P (1996) X-ray diffraction analysis of geometry changes upon excitation: the ground-state and metastable-state structures of K2[Ru(NO2)4(OH)(NO)]. Inorg Chem 35:7021–7026
Fomitchev DV, Coppens P, Li T, Bagley KA, Chen L, Richter-Addo GB (1999) Photo-induced metastable linkage isomers of ruthenium nitrosyl porphyrins. Chem Commun:2013–2014
Schaniel D, Cormary B, Malfant I, Valade L, Woike T, Delley B et al (2007) Photogeneration of two metastable NO linkage isomers with high populations of up to 76% in trans-[RuCl(py)4(NO)][PF6]2·½H2O. Phys Chem Chem Phys 9:3717–3724
Cormary B, Malfant I, Valade L, Buron-Le Cointe M, Toupet L, Todorova T et al (2009) [Ru(py)4Cl(NO)](PF6)2·0.5H0O: a model system for structural determination and ab initio calculations of photo-induced linkage NO isomers. Erratum. Acta Crystallogr B 65:787–787
Kovalevsky AY, King G, Bagley KA, Coppens P (2005) Photoinduced oxygen transfer and double-linkage isomerism in a cis-(NO)(NO2) transition-metal complex by photocrystallography, FT-IR spectroscopy and DFT calculations. Chem Eur J 11:7254–7264
Amabilino S, Tasse M, Lacroix PG, Mallet-Ladeira S, Pimienta V, Akl J et al (2017) Photorelease of nitric oxide (NO) on ruthenium nitrosyl complexes with phenyl substituted terpyridines. New J Chem 41:7371–7383
Giglmeier H, Kerscher T, Klufers P, Schaniel D, Woike T (2009) Nitric-oxide photorelease and photoinduced linkage isomerism on solid [Ru(NO)(terpy)(L)]BPh4 (L = glycolate dianion). Dalton Trans 2009:9113–9116
Dieckmann V, Imlau M, Taffa DH, Walder L, Lepski R, Schaniel D et al (2010) Phototriggered NO and CN release from [Fe(CN)5NO]2- molecules electrostatically attached to TiO2 surfaces. Phys Chem Chem Phys 12:3283–3288
Johnson DA, Dew VC (1979) Photochemical linkage isomerization in coordinated sulfur dioxide. Inorg Chem 18:3273–3274
Kovalevsky AY, Bagley KA, Cole JM, Coppens P (2002) Light-induced metastable linkage isomers of ruthenium sulfur dioxide complexes. Inorg Chem 42:140–147
Kovalevsky AY, Bagley KA, Coppens P (2002) The first photocrystallographic evidence for light-induced metastable linkage isomers of ruthenium sulfur dioxide complexes. J Am Chem Soc 124:9241–9248
Bowes KF, Cole JM, Husheer SLG, Raithby PR, Savarese TL, Sparkes HA et al (2006) Photocrystallographic structure determination of a new geometric isomer of [Ru(NH3)4(H2O)(η1-OSO)] [MeC6H4SO3]2. Chem Commun:2448–2450
Phillips AE, Cole JM, d’Almeida T, Low KS (2010) Effects of the reaction cavity on metastable optical excitation in ruthenium-sulfur dioxide complexes. Phys Rev B 82:155118
Phillips AE, Cole JM, d’Almeida T, Low KS (2012) Ru–OSO coordination photogenerated at 100 K in tetraammineaqua(sulfur dioxide)ruthenium(II) (±)-camphorsulfonate. Inorg Chem 51:1204–1206
Sylvester SO, Cole JM, Waddell PG (2012) Photoconversion bonding mechanism in ruthenium sulfur dioxide linkage photoisomers revealed by in situ diffraction. J Am Chem Soc 134:11860–11863
Cole JM, Velazquez-Garcia JJ, Gosztola DJ, Wang SG, Chen Y-S (2018) η2-SO2 linkage photoisomer of an osmium coordination complex. Inorg Chem 57:2673–2677
Allen AD, Senoff CV (1965) Nitrogenopentammineruthenium(II) complexes. Chem Commun (Lond):621–622
Tanaka H, Nishibayashi Y, Yoshizawa K (2016) Interplay between theory and experiment for ammonia synthesis catalyzed by transition metal complexes. Acc Chem Res 49:987–995
Nishibayashi Y (2018) Development of catalytic nitrogen fixation using transition metal-dinitrogen complexes under mild reaction conditions. Dalton Trans 47:11290–11297
Yang Y, Liu J, Wei Z, Wang S, Ma J (2019) Transition metal-dinitrogen complex embedded graphene for nitrogen reduction reaction. ChemCatChem 11:2821–2827
Fomitchev DV, Bagley KA, Coppens P (2000) The first crystallographic evidence for side-on coordination of N2 to a single metal center in a photoinduced metastable state. J Am Chem Soc 122:532–533
Goulkov M, Schaniel D, Woike T (2010) Pulse recording of thermal and linkage isomer gratings in nitrosyl compounds. J Opt Soc Am B 27:927–932
Sylvester SO, Cole JM (2013) Solar-powered nanomechanical transduction from crystalline molecular rotors. Adv Mater 25:3324–3328
Cole JM, Yeung KYM, Pace G, Sylvester SO, Mersch D, Friend RH (2015) In situ synthesis, crystallisation, and thin-film processing of single crystals of trans-[Ru(SO2)(NH3)4(H2O)][p-TolSO3]2 bearing SO2 linkage photo-isomers: towards optical device applications. CrystEngComm 17:5026–5031
Brayshaw SK, Knight JW, Raithby PR, Savarese TL, Schiffers S, Teat SJ et al (2010) Photocrystallography – design and methodology for the use of a light-emitting diode device. J Appl Crystallogr 43:337–340
Kaminski R, Jarzembska KN, Kutyla SE, Kaminski M (2016) A portable light-delivery device for in situ photocrystallographic experiments in the home laboratory. J Appl Crystallogr 49:1383–1387
Avrami M (1941) Kinetics of phase change. III. Granulation, phase change, and microstructure. J Chem Phys 9:177–184
Avrami M (1940) Kinetics of phase change. II. Transformation-time relations for random distribution of nuclei. J Chem Phys 8:212–224
Avrami M (1939) Kinetics of phase change. I. General theory. J Chem Phys 7:1103–1112
Hatcher LE, Christensen J, Hamilton ML, Trincao J, Allan DR, Warren MR et al (2014) Steady-state and pseudo-steady-state photocrystallographic studies on linkage isomers of [Ni(Et4dien)(η2-O,ON)(η1-NO2)]: identification of a new linkage isomer. Chem Eur J 20:3128–3134
Hatcher LE, Skelton JM, Warren MR, Stubbs C, da Silva EL, Raithby PR (2018) Monitoring photo-induced population dynamics in metastable linkage isomer crystals: a crystallographic kinetic study of [Pd(Bu4dien)NO2]BPh4. Phys Chem Chem Phys 20:5874–5886
Benedict JB, Coppens P (2009) Kinetics of the single-crystal to single-crystal two-photon photodimerization of α-trans-cinnamic acid to α-truxillic acid. J Phys Chem A 113:3116–3120
Bertmer M, Nieuwendaal RC, Barnes AB, Hayes SE (2006) Solid-state photodimerization kinetics of α-trans-cinnamic acid to α-truxillic acid studied via solid-state NMR. J Phys Chem B 110:6270–6273
Abdelmoty I, Buchholz V, Di L, Guo C, Kowitz K, Enkelmann V et al (2005) Polymorphism of cinnamic and α-truxillic acids: new additions to an old story. Cryst Growth Des 5:2210–2217
Enkelmann V, Wegner G, Novak K, Wagener KB (1993) Single-crystal-to-single-crystal photodimerization of cinnamic acid. J Am Chem Soc 115:10390–10391
More R, Busse G, Hallmann J, Paulmann C, Scholz M, Techert S (2010) Photodimerization of crystalline 9-anthracenecarboxylic acid: a nontopotactic autocatalytic transformation. J Phys Chem C 114:4142–4148
Skelton JM, Crespo-Otero R, Hatcher LE, Parker SC, Raithby PR, Walsh A (2015) Energetics, thermal isomerisation and photochemistry of the linkage-isomer system [Ni(Et4dien)(η2-O,ON)(η1-NO2)]. CrystEngComm 17:383–394
Grünbein ML, Stricker M, Nass Kovacs G, Kloos M, Doak RB, Shoeman RL et al (2020) Illumination guidelines for ultrafast pump–probe experiments by serial femtosecond crystallography. Nat Methods 17:681–684
Skarzynski T (2013) Collecting data in the home laboratory: evolution of X-ray sources, detectors and working practices. Acta Crystallogr D Biol Crystallogr 69:1283–1288
Bilderback DH, Elleaume P, Weckert E (2005) Review of third and next generation synchrotron light sources. J Phys B Atomic Mol Phys 38:S773–S797
Jaeschke EJ, Khan S, Schneider JR, Hastings JB (2016) Synchrotron light sources and free-electron lasers: accelerator physics, instrumentation and science applications. Springer, Berlin
Geloni G, Huang Z, Pellegrini C (2017) Chapter 1 the physics and status of X-ray free-electron lasers. In: X-ray free electron lasers: applications in materials, chemistry and biology. The Royal Society of Chemistry, pp 1–44
Mobilio S, Boscherini F, Meneghini C (2016) Synchrotron radiation: basics, methods and applications. Springer, Berlin
Allé P, Wenger E, Dahaoui S, Schaniel D, Lecomte C (2016) Comparison of CCD, CMOS and hybrid pixel x-ray detectors: detection principle and data quality. Phys Scr 91:063001
He T, Durst R, Becker B, Kaercher J, Wachter G (2011) A large area X-ray imager with online linearization and noise suppression. SPIE
Förster A, Brandstetter S, Schulze-Briese C (2019) Transforming X-ray detection with hybrid photon counting detectors. Philos Trans R Soc A Math Phys Eng Sci 377:20180241
Blaj G, Caragiulo P, Carini G, Carron S, Dragone A, Freytag D et al (2015) X-ray detectors at the Linac coherent light source. J Synchrotron Radiat 22:577–583
Bergamaschi A, Mozzanica A, Schmitt B (2020) XFEL detectors. Nat Rev Phys 2:335–336
Poikela T, Plosila J, Westerlund T, Campbell M, Gaspari MD, Llopart X et al (2014) Timepix3: a 65K channel hybrid pixel readout chip with simultaneous ToA/ToT and sparse readout. J Instrum 9:C05013–C05013
Chapman HN, Fromme P, Barty A, White TA, Kirian RA, Aquila A et al (2011) Femtosecond X-ray protein nanocrystallography. Nature 470:73–77
Grunbein ML, Nass KG (2019) Sample delivery for serial crystallography at free-electron lasers and synchrotrons. Acta Crystallogr Sect D 75:178–191
Martiel I, Muller-Werkmeister HM, Cohen AE (2019) Strategies for sample delivery for femtosecond crystallography. Acta Crystallogr Sect D 75:160–177
Mehrabi P, Muller-Werkmeister HM, Leimkohl J-P, Schikora H, Ninkovic J, Krivokuca S et al (2020) The HARE chip for efficient time-resolved serial synchrotron crystallography. J Synchrotron Radiat 27:360–370
Casaretto N, Schaniel D, Alle P, Wenger E, Parois P, Fournier B et al (2017) In-house time-resolved photocrystallography on the millisecond timescale using a gated X-ray hybrid pixel area detector. Acta Crystallogr B 73:696–707
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Hatcher, L.E., Warren, M.R., Pallipurath, A.R., Saunders, L.K., Skelton, J.M. (2020). Watching Photochemistry Happen: Recent Developments in Dynamic Single-Crystal X-Ray Diffraction Studies. In: Mingos, D.M.P., Raithby, P.R. (eds) 21st Century Challenges in Chemical Crystallography I. Structure and Bonding, vol 185. Springer, Cham. https://doi.org/10.1007/430_2020_78
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