Ultrafast time-resolved pump-probe spectroscopy of PYP by a sub-8 fs pulse laser at 400 nm

Journal of Physical Chemistry B

Volumn 117, Issue 17, 2013, Pages 4818-4826

  Liu, Jun ^a,b,c   Yabushita, Atsushi ^d   Taniguchi, Seiji ^e   Chosrowjan, Haik ^e   Imamoto, Yasushi ^f   Sueda, Keiichi ^g   Miyanaga, Noriaki ^g   Kobayashi, Takayoshi ^a,c,d,g  

^a UNIVERSITY OF ELECTRO COMMUNICATIONS   (Japan)

^b SHANGHAI INSTITUTE OF OPTICS AND FINE MECHANICS   (China)

^c JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^d NATIONAL CHIAO TUNG UNIVERSITY   (Taiwan)

^e INSTITUTE FOR LASER TECHNOLOGY   (Japan)

^f KYOTO UNIVERSITY   (Japan)

^g OSAKA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

EXCITED STATES; GROUND STATE; OPTICAL PUMPING; PHOTOEXCITATION; PROBES; WAVE PACKETS;

BROAD-BAND SPECTRUM; ELECTRONIC TRANSITION; FREQUENCY DIFFERENCES; IMPULSIVE EXCITATIONS; PUMP-PROBE SPECTROSCOPY; TIME-RESOLVED PUMP-PROBE SPECTROSCOPY; ULTRA-FAST DYNAMICS; VIBRATIONAL WAVE PACKETS;

ULTRASHORT PULSES;

EID: 84877047632     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp4001016     Document Type: Article

References (56)

1. Meyer, T. E.; Yakali, E.; Cusanovich, M. A.; Tollin, G. Properties of a Water-Soluble, Yellow Protein Isolated from a Halophilic Phototrophic Bacterium That Has Photochemical Activity Analogous to Sensory Rhodopsin Biochemistry 1987, 26, 418-423
2. Hoff, W. D.; Düx, P.; HaÌŠrd, K.; Devreese, B.; Nugteren-Roodzant, I. M.; Crielaard, W.; Boelens, R.; Kaptein, R.; van Beeumen, J.; Hellingwerf, K. J. Thiol Ester-Linked p-Coumaric Acid as a New Photoactive Prosthetic Group in a Protein with Rhodopsin-Like Photochemistry Biochemistry 1994, 33, 13959-13962
3. Baca, M.; Borgstahl, G. E. O.; Boissinot, M.; Burke, P. M.; Williams, D. R.; Slater, K. A.; Getzoff, E. D. Complete Chemical Structure of Photoactive Yellow Protein: Novel Thioester Linked 4-Hydroxycinnamyl Chromophore and Photocycle Chemistry Biochemistry 1994, 33, 14369-14377
4. Hellingwerf, K. J.; Hendriks, J.; Gensch, T. Photoactive Yellow Protein, a New Type of Photoreceptor Protein: Will This "Yellow Lab" Bring Us Where We Want to Go? J. Phys. Chem. A 2003, 107, 1082-1094
5. Meyer, T. E. Isolation and Characterization of Soluble Cytochromes, Ferredoxins and Other Chromophoric Proteins from the Halophilic Phototrophic Bacterium Ectothiorhodospira Halophila Biochim. Biophys. Acta 1985, 806, 175-183
6. Devanathan, S.; Pacheco, A.; Ujj, L.; Cusanovich, M.; Tollin, G.; Lin, S.; Woodbury, N. Femtosecond Spectroscopic Observations of Initial Intermediates in the Photocycle of the Photoactive Yellow Protein from Ectothiorhodospira Halophila Biophys. J. 1999, 77, 1017-1023
7. Meyer, T. E.; Tollin, G.; Hazzard, J. H.; Cusanovich, M. A. Photoactive Yellow Protein from the Purple Phototrophic Bacterium, Ectothiorhodospira Halophila. Quantum Yield of Photobleaching and Effects of Temperature, Alcohols, Glycerol, and Sucrose on Kinetics of Photobleaching and Recovery Biophys. J. 1989, 56, 559-564
8. Thompson, M. J; Bashford, D.; Noodleman, L.; Getzoff, E. D. Photoisomerization and Proton Transfer in Photoactive Yellow Protein J. Am. Chem. Soc. 2003, 125, 8186-8194
9. Imamoto, Y.; Kataoka, M.; Tokunaga, F. Photoreaction Cycle of Photoactive Yellow Protein from Ectothiorhodospira Halophila Studied by Low-Temperature Spectroscopy Biochemistry 1996, 35, 14047-14053
10. Baltuška, A.; Stokkum, I. H. M.; van Kroon, A.; Monshouwer, R.; Hellingwerf, K. J.; van Grondelle, R. The Primary Events in the Photoactivation of Yellow Protein Chem. Phys. Lett. 1997, 270, 263-266
11. Changenet, P.; Zhang, H.; van der Meer, M. J.; Hellingwerf, K. J.; Glasbeek, M. Subpicosecond Fluorescence Upconversion Measurements of Primary Events in Yellow Proteins Chem. Phys. Lett. 1998, 282, 276-282
12. Ujj, L.; Devanathan, S.; Meyer, T. E.; Cusanovich, M. A.; Tollin, G.; Atkinson, G. H. New Photocycle Intermediates in the Photoactive Yellow Protein from Ectothiorhodospira Halophila: Picosecond Transient Absorption Spectroscopy Biophys. J. 1998, 75, 406-412
13. Pan, D.; Philip, A.; Pan, D.; Philip, A.; Hoff, W. D.; Mathies, R. A. Time-Resolved Resonance Raman Structural Studies of the pB2 Intermediate in the Photocycle of Photoactive Yellow Protein Biophys. J. 2004, 86, 2374-2382
14. Genick, U. K.; Borgstahl, G. E.; Ng, K.; Ren, Z.; Pradervand, C.; Burke, P. M.; Šrajer, V.; Teng, T. Y.; Schildkamp, W.; McRee, D. E.; Moffat, K.; Getzoff, E. D. Structure of a Protein Photocycle Intermediate by Millisecond Time-Resolved Crystallography Science 1997, 275, 1471-1475
15. Genick, U. K.; Soltis, S. M.; Kuhn, P.; Canestrelli, I. L.; Getzoff, E. D. Structure at 0.85 Å Resolution of an Early Protein Photocycle Intermediate Nature 1998, 392, 206-209
16. Ren, Z.; Perman, B.; Srajer, V.; Teng, T. Y.; Pradervand, C.; Bourgeois, D.; Schotte, F.; Ursby, T.; Kort, R.; Wulff, M.; Moffat, K. A Molecular Movie at 1.8 Å Resolution Displays the Photocycle of Photoactive Yellow Protein, an Eubacterial Blue-Light Receptor, from Nanoseconds to Seconds Biochemistry 2001, 40, 13788-13801
17. Brudler, R.; Rammelsberg, R.; Woo, T. T.; Getzoff, E. D.; Gerwert, K. Structure of the I1 Early Intermediate of Photoactive Yellow Protein by FTIR Spectroscopy Nat. Struct. Biol. 2001, 8, 265-270
18. Imamoto, Y.; Shirahige, Y.; Tokunaga, F.; Kinoshita, T.; Yoshihara, K.; Kataoka, M. Low-Temperature Fourier Transform Infrared Spectroscopy of Photoactive Yellow Protein Biochemistry 2001, 40, 8997-9004
19. Unno, M.; Kumauchi, M.; Sasaki, J.; Tokunaga, F.; Yamauchi, S. Resonance Raman Spectroscopy and Quantum Chemical Calculations Reveal Structural Changes in the Active Site of Photoactive Yellow Protein Biochemistry 2002, 41, 5668-5674
20. Unno, M.; Kumauchi, M.; Sasaki, J.; Tokunaga, F.; Yamauchi, S. Assignment of Resonance Raman Spectrum of Photoactive Yellow Protein in Its Long-Lived Blue-Shifted Intermediate J. Phys. Chem. B 2003, 107, 2837-2845
21. Borgstahl, G. E. O.; Williams, D. R.; Getzoff, E. D. 1.4 Å Structure of Photoactive Yellow Protein, a Cytosolic Photoreceptor: Unusual Fold, Active Site and Chromophore Biochemistry 1995, 34, 6278-6287
22. Kim, M.; Mathies, R. A; Hoff, W. D.; Hellingwerf, K. J. Resonance Raman Evidence that the Thioester-Linked 4-Hydroxycinnamyl Chromophore of Photoactive Yellow Protein Is Deprotonated Biochemistry 1995, 34, 12669-12672
23. Getzoff, E. D.; Gutwin, K. N.; Genick, U. K. Anticipatory Active-Site Motions and Chromophore Distortion Prime Photoreceptor PYP for Light Activation Nat. Struct. Biol. 2003, 10, 663-668
24. Xie, A.; Hoff, W. D.; Kroon, A. R.; Hellingwerf, K. J. Glu46 Donates a Proton to the 4-Hydroxycinnamate Anion Chromophore During the Photocycle of Photoactive Yellow Protein Biochemistry 1996, 35, 14671-14678
25. Kort, R.; Hellingwerf, K. J.; Ravelli, R. B. Initial Events in the Photocycle of Photoactive Yellow Protein J. Biol. Chem. 2004, 279, 26417-26424
26. Heyne, K.; Mohammed, O. F.; Usman, A.; Dreyer, J.; Nibbering, E. T.; Cusanovich, M. A. Structural Evolution of the Chromophore in the Primary Stages of Trans/Cis Isomerization in Photoactive Yellow Protein J. Am. Chem. Soc. 2005, 127, 18100-18106
27. Groot, M. L.; van Wilderen, L. J.; Larsen, D. S.; van der Horst, M. A.; van Stokkum, I. H.; Hellingwerf, K. J; van Grondelle, R. Initial Steps of Signal Generation in Photoactive Yellow Protein Revealed with Femtosecond Mid-Infrared Spectroscopy Biochemistry 2003, 42, 10054-10059
28. Larsen, D. S.; Mikas, V.; van Stokkum, I. H.M.; van der Horst, M. A.; Cordfunke, R. A.; Hellingwerf, K. J.; van Grondelle, R. Initial Photo-Induced Dynamics of the Photoactive Yellow Protein Chromophore in Solution Chem. Phys. Lett. 2003, 369, 563-569
29. Thompson, M. J.; Bashford, D.; Noodleman, L.; Getzoff, E D. Photoisomerization and Proton Transfer in Photoactive Yellow Protein J. Am. Chem. Soc. 2003, 125, 8186-8194
30. Imamoto, Y.; Kataoka, M.; Tokunaga, F.; Asahi, T.; Masuhara, H. Photoisomerization and Proton Transfer in Photoactive Yellow Protein Biochemistry 2001, 40, 6047-6052
31. Changenet-Barret, P.; Plaza, P.; Martin, M. M. Primary Events in the Photoactive Yellow Protein Chromophore in Solution Chem. Phys. Lett. 2001, 336, 439-444
32. Groenhof, G.; Bouxin-Cademartory, M.; Hess, B.; de Visser, S.; Brendendsen, H.; Olivucci, M.; Mark, A. E.; Robb, M. A. Why Photon Absorption Triggers Isomerization of the Chromophore in Photoactive Yellow Protein J. Am. Chem. Soc. 2004, 126, 4228-4233
33. Chosrowjan, H.; Mataga, N.; Nakashima, N.; Imamoto, Y.; Tokunaga, F. Femtosecond-Picosecond Fluorescence Studies on Excited State Dynamics of Photoactive Yellow Protein from Ectothiorhodospira Halophila Chem. Phys. Lett. 1997, 270, 267-272
34. Mataga, N.; Chosrowjan, H.; Taniguchi, S.; Hamada, N.; Tokunaga, F.; Imamoto, Y.; Kataoka, M. Ultrafast Photoreactions in Protein Nanospaces as Revealed by Femtosecond Fluorescence Dynamics Measurements on Photoactive Yellow Protein and Related Systems Phys. Chem. Chem. Phys. 2003, 5, 2454-2460
35. Hoff, W. D.; van Stokkum, I. H. M.; van Ramesdonk, H. J.; van Brederode, M. E.; Brouwer, A. M.; Fitch, J. C.; Meyer, T. E.; van Grondelle, R.; Hellingwerf, K. J. Measurement and Global Analysis of the Absorbance Changes in the Photocycle of the Photoactive Yellow Protein from Ectothiorhodospira Halophila Biophys. J. 1994, 67, 1691-1705
36. Usman, A.; Mohammed, O. F.; Heyne, K.; Dreyer, J.; Nibbering, E. T. J. Excited State Dynamics of a PYP Chromophore Model System Explored with Ultrafast Infrared Spectroscopy Chem. Phys. Lett. 2005, 401, 157-163
37. Zhou, Y.; Ujj, L.; Meyer, T. E.; Cusanovich, M. A.; Atkinson, G. H. Photocycle Dynamics and Vibrational Spectroscopy of the E46Q Mutant of Photoactive Yellow Protein J. Phys. Chem. A 2001, 105, 5719-5726
38. Premvardhan, L. L.; Buda, F.; van der Horst, M. A.; Luehrs, D.; Hellingwerf, K. J.; van Grondelle, R. The Impact of Photon Absorption on the Electronic Properties of p-Coumaric Acid Derivatives of the Photoactive Yellow Protein Chromophore J. Phys. Chem. B 2004, 108, 5138-5148
39. Devanathan, S.; Lin, S.; Cusanovich, M. A.; Woodbury, N.; Tollin, G. Early Photocycle Kinetic Behavior of the E46A and the Y42F Mutants of Photoactive Yellow Protein Biophys. J. 2001, 81, 2314-2319
40. Changenet-Barret, P.; Espagne, A.; Katsonis, N.; Charier, S.; Baudin, J.-B.; Jullien, L.; Plaza, P.; Martin, M. M. Excited-State Relaxation Dynamics of a PYP Chromophore Model in Solution: Influence of the Thioester Group Chem. Phys. Lett. 2002, 365, 285-291
41. Shimizu, N.; Kamikubo, H.; Yamazaki, Y.; Imamoto, Y.; Kataoka, M. The Crystal Structure of the R52Q Mutant Demonstrates a Role for R52 in Chromophore pKa Regulation in Photoactive Yellow Protein Biochemistry 2006, 45, 3542-3547
42. Liu, J.; Okamura, K.; Kida, Y.; Teramoto, T.; Kobayashi, T. Clean Sub-8-fs Pulses at 400 nm Generated by a Hollow Fiber Compressor for Ultraviolet Ultrafast Pump-Probe Spectroscopy Opt. Express 2010, 18, 20645-20650
43. Liu, J.; Kida, Y.; Teramoto, T.; Kobayashi, T. Generation of Stable Sub-10 fs Pulses at 400 nm in a Hollow Fiber for UV Pump-Probe Experiment Opt. Express 2010, 18, 4665-4672
44. Iwakura, I.; Kobayashi, T.; Yabushita, A. Direct Observation of Molecular Structural Change during Intersystem Crossing by Real-Time Spectroscopy with a Few Optical Cycle Laser Inorg. Chem. 2009, 48, 3523-3528
45. Iwakura, I.; Yabushita, A.; Kobayashi, T. Transition States and Nonlinear Excitations in Chloroform Observed with a Sub-5 fs Pulse Laser J. Am. Chem. Soc. 2009, 131, 688-696
46. Nakamura, R.; Hamada, N.; Ichida, H.; Tokunaga, F.; Kanematsu, Y. Coherent Oscillations in Ultrafast Fluorescence of Photoactive Yellow Protein J. Chem. Phys. 2007, 127, 215102
47. Larsen, D. S.; van Grondelle, R. Initial Photoinduced Dynamics of the Photoactive Yellow Protein ChemPhysChem 2005, 6, 828-837
48. Larsen, D. S.; van Stokkum, I. H.; van Grondelle, R. Incoherent Manipulation of the Photoactive Yellow Protein Photocycle with Dispersed Pump-Dump-Probe Spectroscopy Biophys. J. 2004, 87, 1858-1872
49. Ishii, N.; Tokunaga, E.; Adachi, S.; Kimura, T.; Matsuda, H.; Kobayashi, T. Optical Frequency and Vibrational Time-Resolved Two-Dimensional Spectroscopy by Real-Time Impulsive Resonant Coherent Raman Scattering in Polydiacetylene Phys. Rev. A 2004, 7 (0023811) 1-7
50. Du, J.; Nakata, K.; Jiang, Y.; Tokunaga, E.; Kobayashi, T. Spectral Modulation Observed in Chl-a by Ultrafast Laser Spectroscopy Opt. Express 2011, 19, 22480-22485
51. Du, J.; Teramoto, T.; Nakata, K.; Tokunaga, E.; Kobayashi, T. Real-Time Vibrational Dynamics in Chlorophyll a Studied with a Few-Cycle Pulse Laser Biophys. J. 2011, 101, 995-1003
52. Unno, M.; Kumauchi, M.; Tokunaga, F.; Yamauchi, S. Vibrational Assignment of the 4-Hydroxycinnamyl Chromophore in Photoactive Yellow Protein J. Phys. Chem. B 2007, 111, 2719-2726
53. Adesokan, A. A.; Pan, D.; Fredj, E.; Mathies, R. A.; Gerber, R. B. Anharmonic Vibrational Calculations Modeling the Raman Spectra of Intermediates in the Photoactive Yellow Protein (PYP) Photocycle J. Am. Chem. Soc. 2007, 129, 4584-4594
54. Chosrowjan, H.; Taniguchi, S.; Mataga, N.; Unno, M.; Yamauchi, S.; Hamada, N.; Kumauchi, M.; Tokunaga, F. Low-Frequency Vibrations and Their Role in Ultrafast Photoisomerization Reaction Dynamics of Photoactive Yellow Protein J. Phys. Chem. B 2004, 108, 2686-2698
55. Mataga, N.; Chosrowjan, H.; Shibata, Y.; Imamoto, Y.; Kataoka, M.; Tokunaga, F. Ultrafast Photoinduced Reaction Dynamics of Photoactive Yellow Protein (PYP): Observation of Coherent Oscillations in the Femtosecond Fluorescence Decay Dynamics Chem. Phys. Lett. 2002, 352, 220-225
56. Xie, A.; Kelemen, L.; Hendriks, J.; White, B. J.; Hellingwerf, K. J.; Hoff, W. D. Formation of a New Buried Charge Drives a Large-amplitude Protein Quake in Photoreceptor Activation Biochemistry 2001, 40, 1510-1517