Protein-flexibility mediated coupling between photoswitching kinetics and surrounding viscosity of a photochromic fluorescent protein

Proceedings of the National Academy of Sciences of the United States of America

Volumn 109, Issue 9, 2012, Pages 3220-3225

  Kao, Ya Ting ^a   Zhu, Xinxin ^a   Min, Wei ^a  

^a Och Spine at New York Presbyterian Hospitals   (United States)

Author keywords

Photoisomerization; Protein conformation flexibility

Indexed keywords

DRONPA 3 PROTEIN; DRONPA PROTEIN; ESCHERICHIA COLI PROTEIN; FLUORESCENT DYE; HISTONE; HYBRID PROTEIN; MUTANT PROTEIN; PHOTOCHROMIC FLUORESCENT PROTEIN; UNCLASSIFIED DRUG;

ARTICLE; CHEMICAL ENVIRONMENT; CHEMICAL REACTION KINETICS; CHROMATOPHORE; CIS TRANS ISOMERISM; CONTROLLED STUDY; CROSS COUPLING REACTION; ESCHERICHIA COLI; HUMAN; HUMAN CELL; HYDRODYNAMICS; LIGHT; NONHUMAN; PHOTOSWITCHING KINETICS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; VISCOSITY;

AMINO ACID SUBSTITUTION; ANIMALS; ANTHOZOA; CRYSTALLIZATION; FLUORESCENCE; FLUORESCENT DYES; GENES, REPORTER; HEK293 CELLS; HISTONES; HUMANS; ISOMERISM; KINETICS; LIGHT; LUMINESCENT PROTEINS; MICROSCOPY, FLUORESCENCE; MODELS, MOLECULAR; PHOTOCHEMISTRY; PROTEIN CONFORMATION; RECOMBINANT FUSION PROTEINS; SOLUTIONS; SOLVENTS; ULTRAVIOLET RAYS; VISCOSITY;

EID: 84863288433     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1115311109     Document Type: Article

References (36)

1. Chalfie M, Tu Y, Euskirchen G, Ward WW, Prasher DC (1994) Green fluorescent protein as a marker for gene expression. Science 263:802-805. (Pubitemid 24093206)
2. Tsien RY (1998) The green fluorescent protein. Annu Rev Biochem 67:509-544.
3. Lippincott-Schwartz J, Patterson GH (2003) Development and use of fluorescent protein markers in living cells. Science 300:87-91. (Pubitemid 36423032)
4. Newman RH, Fosbrink MD, Zhang J (2011) Genetically encodable fluorescent biosensors for tracking signaling dynamics in living cells. Chem Rev 111:3614-3666.
5. Yang F, Moss LG, Phillips GN (1996) The molecular structure of green fluorescent protein. Nat Biotechnol 14:1246-1251. (Pubitemid 26332784)
6. Suhling K, Davis DM, Phillips D (2002) The influence of solvent viscosity on the fluorescence decay and time-resolved anisotropy of green fluorescent protein. J Fluoresc 12:91-95.
7. Suhling K, et al. (2002) Imaging the environment of green fluorescent protein. Biophys J 83:3589-3595. (Pubitemid 36041976)
8. Borst JW, Hink MA, van Hoek A, Visser AJWG (2005) Effects of refractive index and viscosity on fluorescence and anisotropy decays of enhanced cyan and yellow fluorescent proteins. J Fluoresc 15:153-160. (Pubitemid 40661895)
9. Lippincott-Schwartz J, Patterson GH (2008) Fluorescent proteins for photoactivation experiments. Methods Cell Biol 85:45-61.
10. Lukyanov KA, Chudakov DM, Lukyanov S, Verkhusha VV (2005) Photoactivatable fluorescent proteins. Nat Rev Mol Cell Biol 6:885-891. (Pubitemid 41568737)
11. Mizuno H, et al. (2003) Photo-induced peptide cleavage in the green-to-red conversion of a fluorescent protein. Mol Cell 12:1051-1058. (Pubitemid 37352795)
12. Chudakov DM, et al. (2003) Kindling fluorescent proteins for precise in vivo photolabeling. Nat Biotechnol 21:191-194. (Pubitemid 36188220)
13. Ando R, Mizuno H, Miyawaki A (2004) Regulated fast nucleocytoplasmic shuttling observed by reversible protein highlighting. Science 306:1370-1373. (Pubitemid 39532513)
14. Andresen M, et al. (2005) Structure and mechanism of the reversible photoswitch of a fluorescent protein. Proc Natl Acad Sci USA 102:13070-13074. (Pubitemid 41324980)
15. Stiel AC, et al. (2008) Generation of monomeric reversibly switchable red fluorescent proteins for far-field fluorescence nanoscopy. Biophys J 95:2989-2997.
16. Wilmann PG, et al. (2006) The 1.7 Å crystal structure of Dronpa: A photoswitchable green fluorescent protein. J Mol Biol 364:213-224. (Pubitemid 44649252)
17. Andresen M, et al. (2007) Structural basis for reversible photoswitching in Dronpa. Proc Natl Acad Sci USA 104:13005-13009. (Pubitemid 351737583)
18. Stiel AC, et al. (2007) 1.8 Å bright-state structure of the reversibly switchable fluorescent protein Dronpa guides the generation of fast switching variants. Biochem J 402:35-42.
19. Mizuno H, et al. (2008) Light-dependent regulation of structural flexibility in a photochromic fluorescent protein. Proc Natl Acad Sci USA 105:9227-9232.
20. Ando R, Flors C, Mizuno H, Hofkens J, Miyawaki A (2007) Highlighted generation of fluorescence signals using simultaneous two-color irradiation on Dronpa mutants. Biophys J 92:L97-L99. (Pubitemid 46910524)
21. Flors C, et al. (2007) A stroboscopic approach for fast photoactivation-localization microscopy with Dronpa mutants. J Am Chem Soc 129:13970-13977. (Pubitemid 350106088)
22. Andresen M, et al. (2008) Photoswitchable fluorescent proteins enable monochromatic multilabel imaging and dual color fluorescence nanoscopy. Nat Biotechnol 26:1035-1040.
23. Kwon OY, Kwon IC, Song HK, Jeon H (2008) Real-time imaging of NF-AT nucleocytoplasmic shuttling with a photoswitchable fluorescence protein in live cells. Biochim Biophys Acta 1780:1403-1407.
24. Shroff H, et al. (2007) Dual-color superresolution imaging of genetically expressed probes within individual adhesion complexes. Proc Natl Acad Sci USA 104:20308-20313.
25. Mizuno H, et al. (2010) Higher resolution in localization microscopy by slower switching of a photochromic protein. Photochem Photobiol Sci 9:239-248.
26. Swaminathan R, Hoang CP, Verkman AS (1997) Photobleaching recovery and anisotropy decay of green fluorescent protein GFP-S65T in solution and cells: Cytoplasmic viscosity probed by green fluorescent protein translational and rotational diffusion. Biophys J 72:1900-1907. (Pubitemid 27133128)
27. Habuchi S, et al. (2005) Reversible single-molecule photoswitching in the GFP-like fluorescent protein Dronpa. Proc Natl Acad Sci USA 102:9511-9516. (Pubitemid 40981712)
28. Li X, Chung LW, Mizuno H, Miyawaki A, Morokuma K (2010) Primary events of photodynamics in reversible photoswitching fluorescent protein Dronpa. J Phys Chem Lett 1:3328-3333.
29. Pernodet N, Maaloum M, Tinland B (1997) Pore size of agarose gels by atomic force microscopy. Electrophoresis 18:55-58. (Pubitemid 27073649)
30. Cotlet M, et al. (2001) Excited-state dynamics in the enhanced green fluorescent protein mutant probed by picosecond time-resolved single photon counting spectroscopy. J Phys Chem B 105:4999-5006. (Pubitemid 35372666)
31. Jung G, Wiehler J, Zumbusch A (2005) The photophysics of green fluorescent protein: Influence of the key amino acids at positions 65, 203, and 222. Biophys J 88:1932-1947.
32. van Manen H-J, et al. (2008) Refractive index sensing of green fluorescent proteins in living cells using fluorescence lifetime imaging microscopy. Biophys J 94:L67-L69.
33. Banerjee B, Bhattacharya D, Shivashankar GV (2006) Chromatin structure exhibits spatio-temporal heterogeneity within the cell nucleus. Biophys J 91:2297-2303. (Pubitemid 44352412)
34. Lang I, Scholz M, Peters R (1986) Molecular mobility and nucleocytoplasmic flux in hepatoma cells. J Cell Biol 102:1183-1190. (Pubitemid 16038061)
35. Marshall WF, et al. (1997) Interphase chromosomes undergo constrained diffusional motion in living cells. Curr Biol 7:930-939. (Pubitemid 28017070)
36. Kues T, Dickmanns A, Lührmann R, Peters R, Kubitscheck U (2001) High intranuclear mobility and dynamic clustering of the splicing factor U1 snRNP observed by single particle tracking. Proc Natl Acad Sci USA 98:12021-12026. (Pubitemid 32959819)