Reactive ground-state pathways are not ubiquitous in red/green cyanobacteriochromes

Journal of Physical Chemistry B

Volumn 117, Issue 38, 2013, Pages 11229-11238

  Chang, Che Wei ^a   Gottlieb, Sean M ^a   Kim, Peter W ^a   Rockwell, Nathan C ^a   Lagarias, J Clark ^a   Larsen, Delmar S ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOPHORE PRECURSORS; EXCITED-STATE DYNAMICS; FEMTOSECONDS; INHOMOGENEOUS TARGETS; NOSTOC PUNCTIFORME; PHOTOPRODUCTS; PHOTOREACTIONS; PUMP-PROBE;

BACTERIA; CHROMOPHORES; PHOTOREACTIVITY; PROBES; PROTEINS; PUMPS; QUANTUM YIELD;

GROUND STATE;

BACTERIAL PROTEIN; PHYCOBILIN; PHYCOCYANIN; PHYCOCYANOBILIN; RECOMBINANT PROTEIN;

ARTICLE; BIOSYNTHESIS; CHEMISTRY; GENETICS; KINETICS; METABOLISM; NOSTOC; QUANTUM THEORY;

BACTERIAL PROTEINS; KINETICS; NOSTOC; PHYCOBILINS; PHYCOCYANIN; QUANTUM THEORY; RECOMBINANT PROTEINS;

EID: 84884953136     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp402112u     Document Type: Article

References (42)

1. J. Am. Chem. Soc. 2012, 134, 130-133
2. Shu, X. K.; Royant, A.; Lin, M. Z.; Aguilera, T. A.; Lev-Ram, V.; Steinbach, P. A.; Tsien, R. Y. Mammalian Expression of Infrared Fluorescent Proteins Engineered from a Bacterial Phytochrome Science 2009, 324, 804-807
3. Moglich, A.; Moffat, K. Engineered Photoreceptors As Novel Optogenetic Tools Photochem. Photobiol. Sci. 2010, 9, 1286-1300
4. Drepper, T.; Krauss, U.; Berstenhorst, S. M. Z.; Pietruszka, J.; Jaeger, K. E. Lights On and Action! Controlling Microbial Gene Expression by Light Appl. Microbiol. Biotechnol. 2011, 90, 23-40
5. van der Horst, M. A.; Hellingwerf, K. J. Photoreceptor Proteins, "Star Actors of Modern Times": A Review of the Functional Dynamics in the Structure of Representative Members of Six Different Photoreceptor Families Acc. Chem. Res. 2004, 37, 13-20
6. Briggs, W. R.; Spudich, J. L. Handbook of Photosensory Receptors; Wiley-VCH: Weinheim, Germany, 2005; p 473.
7. Levine, B. G.; Martinez, T. J. Isomerization through Conical Intersections Annu. Rev. Phys. Chem. 2007, 58, 613-634 (Pubitemid 46877603)
8. Kennis, J. T.; Larsen, D. S.; van Stokkum, I. H.; Vengris, M.; van Thor, J. J.; van Grondelle, R. Uncovering the Hidden Ground State of Green Fluorescent Protein Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 17988-17993 (Pubitemid 40054062)
9. Larsen, D. S.; van Stokkum, I. H. M.; Vengris, M.; van der Horst, M. A.; de Weerd, F. L.; Hellingwerf, K. J.; van Grondelle, R. Incoherent Manipulation of the Photoactive Yellow Protein Photocycle with Dispersed Pump-Dump-Probe Spectroscopy Biophy. J. 2004, 87, 1858-1872 (Pubitemid 39167041)
10. Larsen, D. S.; Vengris, M.; van Stokkum, I. H. M.; van der Horst, M. A.; de Weerd, F. L.; Hellingwerf, K. J.; van Grondelle, R. Photoisomerization and Photoionization of the Photoactive Yellow Protein Chromophore in Solution Biophy. J. 2004, 86, 2538-2550 (Pubitemid 38524440)
11. Papagiannakis, E.; Larsen, D. S.; van Stokkum, I. H. M.; Vengris, M.; Hiller, R. G.; van Grondelle, R. Resolving the Excited State Equilibrium of Peridinin in Solution Biochemistry 2004, 43, 15303-15309 (Pubitemid 39647456)
12. Vengris, M.; Larsen, D. S.; van der Horst, M. A.; Larsen, O. F. A.; Hellingwerf, K. J.; van Grondelle, R. Ultrafast Dynamics of Isolated Model Photoactive Yellow Protein Chromophores: "Chemical Perturbation Theory" in the Laboratory J. Phys. Chem. B 2005, 109, 4197-4208 (Pubitemid 40402303)
13. 1 and S* States J. Phys. Chem. B 2006, 110, 5727-5736
14. Papagiannakis, E.; Vengris, M.; Larsen, D. S.; van Stokkum, I. H. M.; Hiller, R. G.; van Grondelle, R. Use of Ultrafast Dispersed Pump-Dump-Probe and Pump-Repump-Probe Spectroscopies to Explore the Light-Induced Dynamics of Peridinin in Solution J. Phys. Chem. B 2006, 110, 512-521 (Pubitemid 43133574)
15. Papagiannakis, E.; Vengris, M.; Valkunas, L.; Cogdell, R. J.; van Grondelle, R.; Larsen, D. S. Excited-State Dynamics of Carotenoids in Light-Harvesting Complexes. 2. Dissecting Pulse Structures from Optimal Control Experiments J. Phys. Chem. B 2006, 110, 5737-5746
16. Jailaubekov, A. E.; Vengris, M.; Song, S. H.; Kusumoto, T.; Hashimoto, H.; Larsen, D. S. Deconstructing the Excited-State Dynamics of Beta-Carotene in Solution J. Phys. Chem. A 2011, 115, 3905-3916
17. Rockwell, N. C.; Lagarias, J. C. A Brief History of Phytochromes ChemPhysChem 2010, 11, 1172-1180
18. Auldridge, M. E.; Forest, K. T. Bacterial Phytochromes: More than Meets the Light Crit. Rev. Biochem. Mol. 2011, 46, 67-88
19. Ikeuchi, M.; Ishizuka, T. Cyanobacteriochromes: A New Superfamily of Tetrapyrrole-Binding Photoreceptors in Cyanobacteria Photochem. Photobiol. Sci. 2008, 7, 1159-1167
20. Yoshihara, S.; Katayama, M.; Geng, X.; Ikeuchi, M. Cyanobacterial Phytochrome-Like PixJ1 Holoprotein Shows Novel Reversible Photoconversion between Blue- And Green-Absorbing Forms Plant Cell Physiol. 2004, 45, 1729-1737
21. Hirose, Y.; Shimada, T.; Narikawa, R.; Katayama, M.; Ikeuchi, M. Cyanobacteriochrome CcaS is the Green Light Receptor That Induces the Expression of Phycobilisome Linker Protein Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 9528-9533 (Pubitemid 352031335)
22. Narikawa, R.; Fukushima, Y.; Ishizuka, T.; Itoh, S.; Ikeuchi, M. A Novel Photoactive GAF domain of Cyanobacteriochrome AnPixJ That Shows Reversible Green/Red Photoconversion J. Mol. Biol. 2008, 380, 844-855
23. Rockwell, N. C.; Martin, S. S.; Feoktistova, K.; Lagarias, J. C. Diverse Two-Cysteine Photocycles in Phytochromes and Cyanobacteriochromes Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 11854-11859
24. Enomoto, G.; Hirose, Y.; Narikawa, R.; Ikeuchi, M. Thiol-Based Photocycle of the Blue and Teal Light-Sensing Cyanobacteriochrome Tlr1999 Biochemistry 2012, 51, 3050-3058
25. Ma, Q.; Hua, H. H.; Chen, Y.; Liu, B. B.; Kramer, A. L.; Scheer, H.; Zhao, K. H.; Zhou, M. A Rising Tide of Blue-Absorbing Biliprotein Photoreceptors: Characterization of Seven Such Bilin-Binding GAF Domains in Nostoc sp. PCC7120 FEBS J. 2012, 279, 4095-4108
26. Rockwell, N. C.; Martin, S. S.; Gulevich, A. G.; Lagarias, J. C. Phycoviolobilin Formation and Spectral Tuning in the DXCF Cyanobacteriochrome Subfamily Biochemistry 2012, 51, 1449-1463
27. Rockwell, N. C.; Martin, S. S.; Lagarias, J. C. Red/Green Cyanobacteriochromes: Sensors of Color and Power Biochemistry 2012, 51, 9667-9677
28. Bischoff, M.; Hermann, G.; Rentsch, S.; Strehlow, D. First Steps in the Phytochrome Phototransformation: A Comparative Femtosecond Study on the Forward (Pr → Pfr) and Back Reaction (Pfr → Pr) Biochemistry 2001, 40, 181-186 (Pubitemid 32052690)
29. Song, C.; Psakis, G.; Lang, C.; Mailliet, J.; Gartner, W.; Hughes, J.; Matysik, J. Two Ground State Isoforms and a Chromophore D-Ring Photoflip Triggering Extensive Intramolecular Changes in a Canonical Phytochrome Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 3842-3847
30. Kim, P. W.; Freer, L. H.; Rockwell, N. C.; Martin, S. S.; Lagarias, J. C.; Larsen, D. S. Second-Chance Forward Isomerization Dynamics of the Red/Green Cyanobacteriochrome NpR6012g4 from Nostoc punctiforme J. Am. Chem. Soc. 2012, 134, 130-133
31. Kim, P. W.; Freer, L. H.; Rockwell, N. C.; Martin, S. S.; Lagarias, J. C.; Larsen, D. S. Femtosecond Photodynamics of the Red/Green Cyanobacteriochrome NpR6012g4 from Nostoc punctiforme. 2. Reverse Dynamics Biochemistry 2012, 51, 619-630
32. Kim, P. W.; Freer, L. H.; Rockwell, N. C.; Martin, S. S.; Lagarias, J. C.; Larsen, D. S. Femtosecond Photodynamics of the Red/Green Cyanobacteriochrome NpR6012g4 from Nostoc punctiforme. 1. Forward Dynamics Biochemistry 2012, 51, 608-618
33. Heyne, K.; Herbst, J.; Stehlik, D.; Esteban, B.; Lamparter, T.; Hughes, J.; Diller, R. Ultrafast Dynamics of Phytochrome from the Cyanobacterium Synechocystis, Reconstituted with Phycocyanobilin and Phycoerythrobilin Biophys. J. 2002, 82, 1004-1016 (Pubitemid 34111238)
34. Narikawa, R.; Ishizuka, T.; Muraki, N.; Shiba, T.; Kurisu, G.; Ikeuchi, M. Structures of Cyanobacteriochromes from Phototaxis Regulators AnPixJ and TePixJ Reveal General and Specific Photoconversion Mechanism Proc. Natl. Acad. Sci. U.S.A. 2013, 110, 918-923
35. Rockwell, N. C.; Shang, L.; Martin, S. S.; Lagarias, J. C. Distinct Classes of Red/Far-Red Photochemistry within the Phytochrome Superfamily Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 6123-6127
36. Carroll, E. C.; Compton, O. C.; Madsen, D.; Osterloh, F. E.; Larsen, D. S. Ultrafast Carrier Dynamics in Exfoliated and Functionalized Calcium Niobate Nanosheets in Water and Methanol J. Phys. Chem. C 2008, 112, 2394-2403 (Pubitemid 351316423)
37. Holzwarth, A. R. Data Analysis of Time-Resolved Measurements. In Biophysical Techniques in Photosynthesis; Amesz, J.; Hoff, A. J., Eds.; Springer: The Netherlands, 1996; pp 75-92.
38. van Stokkum, I. H. M.; Larsen, D. S.; van Grondelle, R. Global and Target Analysis of Time-Resolved Spectra Biochim. Biophys. Acta, Bioenerg. 2004, 1657, 82-104 (Pubitemid 38952870)
39. Spillane, K. M.; Dasgupta, J.; Lagarias, J. C.; Mathies, R. A. Homogeneity of Phytochrome Cph1 Vibronic Absorption Revealed by Resonance Raman Intensity Analysis J. Am. Chem. Soc. 2009, 131, 13946-13948
40. Kim, P. W.; Pan, J.; Rockwell, N. C.; Chang, C.-W.; Taylor, K. C.; Clark Lagarias, J.; Larsen, D. S. Ultrafast E to Z Photoisomerization Dynamics of the Cph1 Phytochrome Chem. Phys. Lett. 2012, 549, 86-92
41. Hill, M. P.; Freer, L. H.; Vang, M. C.; Carroll, E. C.; Larsen, D. S. Multiphoton Manipulations of Enzymatic Photoactivity in Aspartate Aminotransferase J. Phys. Chem. B 2011, 115, 4474-4483
42. Kim, P. W.; Rockwell, N. C.; Martin, S. S.; Lagarias, J. C.; Larsen, D. S. To Fluoresce or Not to Fluoresce, That Is the Question: Dynamic Inhomogeneity in the Cph1 Phytochrome. In preparation.