Calmodulin, conformational states, and calcium signaling. A single-molecule perspective

Biochemistry

Volumn 45, Issue 48, 2006, Pages 14233-14246

  Johnson, Carey K ^a  

^a UNIVERSITY OF KANSAS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL MEMBRANES; CONFORMATIONS; ENERGY TRANSFER; FLUORESCENCE; POLARIZATION; POLYPEPTIDES; PROTEINS; SIGNALING; SPECTROSCOPIC ANALYSIS;

CALCIUM BINDING PROTEIN CALMODULIN (CAM); CALCIUM SIGNALING PATHWAYS; FLUORESCENCE BURST MEASUREMENTS; SINGLE MOLECULE FLUORESCENCE SPECTROSCOPY;

CALCIUM;

ADENOSINE TRIPHOSPHATASE (CALCIUM); CALCIUM; CALCIUM BINDING PROTEIN; CALMODULIN; FLUORESCENT DYE; HYBRID PROTEIN; UREA;

CALCIUM SIGNALING; CRYSTAL STRUCTURE; FLUORESCENCE CORRELATION SPECTROSCOPY; FLUORESCENCE RESONANCE ENERGY TRANSFER; FLUORESCENCE SPECTROSCOPY; HISTOGRAM; MATHEMATICAL MODEL; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEIN PHOSPHORYLATION; PROTEIN PROTEIN INTERACTION; REVIEW;

CALCIUM; CALCIUM SIGNALING; CALCIUM-TRANSPORTING ATPASES; CALMODULIN; MOLECULAR CONFORMATION; SUBSTRATE SPECIFICITY;

EID: 33845261364     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi061058e     Document Type: Review

References (130)

1. Hoeflich, K. P., and Ikura, M. (2002) Calmodulin in Action: Diversity in Target Recognition and Activation Mechanisms, Cell 108, 739-742.
2. Shera, E. B., Seitzinger, N. K., Davis, L. M., Keller, R. A., and Soper, S. A. (1990) Detection of Single Fluorescent Molecules, Chem. Phys. Lett. 174, 553-557.
3. Ambrose, W. P., and Moerner, W. E. (1991) Fluorescence Spectroscopy and Spectral Diffusion of Single Impurity Molecules in a Crystal, Nature 349, 225-227.
4. Xie, X. S., and Dunn, R. C. (1994) Probing Single Molecule Dynamics, Science 265, 361-364.
5. Nie, S., Chiu, D. T., and Zare, R. N. (1994) Probing Individual Molecules in Solution with Confocal Fluorescence Microscopy, Science 266, 1018-1021.
6. Eigen, M., and Rigler, R. (1994) Sorting Single Molecules: Application to Diagnostics and Evolutionary Biotechnology, Proc. Natl. Acad. Sci. U.S.A. 91, 5740-5747.
7. Moerner, W. E. (2002) A Dozen Years of Single-Molecule Spectroscopy in Physics, Chemistry, and Biophysics, J. Phys. Chem. B 106, 910-927.
8. Michalet, X., Kapanidis, A. N., Laurence, T., Pinaud, F., Doose, S., Pflughoefft, M., and Weiss, S. (2003) The Power and Prospects of Fluorescence Microscopies and Spectroscopies, Annu. Rev. Biophys. Biomol. Struct. 32, 161-182.
9. Ha, T. (2004) Structural Dynamics and Processing of Nucleic Acids Revealed by Single-Molecule Spectroscopy, Biochemistry 43, 4055-4063.
10. Min, W., English, B. P., Luo, G., Cherayil, B. J., Kou, S. C., and Xie, X. S. (2005) Fluctuating Enzymes: Lessons from Single-Molecule Studies, Acc. Chem. Res. 38, 923-931.
11. Schuler, B., Lipman, E. A., and Eaton, W. A. (2002) Probing the Free-Energy Surface for Protein Folding with Single-Molecule Fluorescence Spectroscopy, Nature 419, 743-747.
12. Talaga, D. S., Lau, W. L., Roder, H., Tang, J., Jia, Y., DeGrado, W. F., and Hochstrasser, R. M. (2000) Dynamics and Folding of Single Two-Stranded Coiled-Coil Peptides Studied by Fluorescent Energy Transfer Confocal Microscopy, Proc. Natl. Acad. Sci. U.S.A. 97, 13021-13026.
13. Deniz, A. A., Laurence, T. A., Beligere, G. S., Dahan, M., Martin, A. B., Chemla, D. S., Dawson, P. E., Schultz, P. G., and Weiss, S. (2000) Single-Molecule Protein Folding: Diffusion Fluorescence Resonance Energy Transfer Studies of the Denaturation of Chymotrypsin Inhibitor 2, Proc. Natl. Acad. Sci. U.S.A. 97, 5179-5184.
14. Rothwell, P. J., Berger, S., Kensch, O., Felekyan, S., Antonik, M., Wohrl, B. M., Restle, T., Goody, R. S., and Seidel, C. A. M. (2003) Multiparameter Single-Molecule Fluorescence Spectroscopy Reveals Heterogeneity of HIV-1 Reverse Transcriptase: Primer/Template Complexes, Proc. Natl. Acad. Sci. U.S.A. 100, 1655-1660.
15. Margittai, M., Widengren, J., Schweinberger, E., Schroeder, G. F., Felekyan, S., Haustein, E., Koenig, M., Fasshauer, D., Grubmueller, H., Jahn, R., and Seidel, C. A. M. (2003) Single-Molecule Fluorescence Resonance Energy Transfer Reveals a Dynamic Equilibrium between Closed and Open Conformations of Syntaxin 1, Proc. Natl. Acad. Sci. U.S.A. 100, 15516-15521.
16. Rhoades, E., Cohen, M., Schuler, B., and Haran, G. (2004) Two-State Folding Observed in Individual Protein Molecules, J. Am. Chem. Soc. 126, 14686-14687.
17. Rueda, D., Bokinsky, G., Rhodes, M. M., Rust, M. J., Zhuang, X., and Walter, N. G. (2004) Single-Molecule Enzymology of RNA: Essential Functional Groups Impact Catalysis from a Distance, Proc. Natl. Acad. Sci. U.S.A. 101, 10066-10071.
18. 2+-Dependent Conformational Change of RNA Studied by Fluorescence Correlation and FRET on Immobilized Single Molecules, Proc. Natl. Acad. Sci. U.S.A. 99, 4284-4289.
19. Rosenberg, S. A., Quinlan, M. E., Forkey, J. N., and Goldman, Y. E. (2005) Rotational Motions of Macro-Molecules by Single-Molecule Fluorescence Microscopy, Acc. Chem. Res. 38, 583-593.
20. Peterman, E. J. G., Sosa, H., and Moerner, W. E. (2004) Single-Molecule Fluorescence Spectroscopy and Microscopy of Biomolecular Motors, Annu. Rev. Phys. Chem. 55, 79-96.
21. Adachi, K., Noji, H., and Kinosita, K., Jr. (2003) Single-Molecule Imaging of Rotation of F1-ATPase, Methods Enzymol 361, 211-227.
22. Yildiz, A., and Selvin, P. R. (2005) Fluorescence Imaging with One Nanometer Accuracy: Application to Molecular Motors, Acc. Chem. Res. 38, 574-582.
23. Schmidt, T., Schuetz, G. J., Baumgartner, W., Gruber, H. J., and Schindler, H. (1996) Imaging of Single Molecule Diffusion, Proc. Natl. Acad. Sci. U.S.A. 93, 2926-2929.
24. 2+ Channels in Live Cells, Biophys. J. 81, 2639-2646.
25. Lommerse, P. H. M., Blab, G. A., Cognet, L., Harms, G. S., Snaarjagalska, B. E., Spaink, H. P., and Schmidt, T. (2004) Single-Molecule Imaging of the H-Ras Membrane-Anchor Reveals Domains in the Cytoplasmic Leaflet of the Cell Membrane, Biophys. J. 86, 609-616.
26. Deich, J., Judd, E. M., McAdams, H. H., and Moerner, W. E. (2004) Visualization of the Movement of Single Histidine Kinase Molecules in Live Caulobacter Cells, Proc. Natl. Acad. Sci. U.S.A. 101, 15921-15926.
27. Seisenberger, G., Ried, M. U., Endress, T., Buning, H., Hallek, M., and Brauchle, C. (2001) Real-Time Single-Molecule Imaging of the Infection Pathway of an Adeno-Associated Virus, Science 294, 1929-1932.
28. Rust, M. J., Lakadamyali, M., Zhang, F., and Zhuang, X. (2004) Assembly of Endocytic Machinery around Individual Influenza Viruses During Viral Entry, Nat. Struct. Mol. Biol. 11, 567-573.
29. Ha, T., Enderle, T., Chemla, D. S., Selvin, P. R., and Weiss, S. (1996) Single Molecule Dynamics Studied by Polarization Modulation, Phys. Rev. Lett. 77, 3979-3982.
30. Forkey, J. N., Quinlan, M. E., Shaw, M. A., Corrie, J. E., and Goldman, Y. E. (2003) Three-Dimensional Structural Dynamics of Myosin V by Single-Molecule Fluorescence Polarization, Nature 422, 399-404.
31. Osborn, K. D., Singh, M. K., Urbauer, R. J. B., and Johnson, C. K. (2003) Maximum Likelihood Approach to Single-Molecule Polarization Modulation Analysis, ChemPhysChem 4, 1005-1011.
32. Lu, H. P., Xun, L., and Xie, X. S. (1998) Single-Molecule Enzymatic Dynamics, Science 282, 1877-1882.
33. Ha, T., Enderle, T., Ogletree, D. F., Chemla, D. S., Selvin, P. R., and Weiss, S. (1996) Probing the Interaction between Two Single Molecules: Fluorescence Resonance Energy Transfer between a Single Donor and a Single Acceptor, Proc. Natl. Acad. Sci. U.S.A. 93, 6264-6268.
34. Deniz, A. A., Dahan, M., Grunwell, J. R., Ha, T., Faulhaber, A. E., Chemla, D. S., Weiss, S., and Schultz, P. G. (1999) Single-Pair Fluorescence Resonance Energy Transfer on Freely Diffusing Molecules: Observation of Förster Distance Dependence and Subpopulations, Proc. Natl. Acad. Sci. U.S.A. 96, 3670-3675.
35. Schuler, B., Lipman, E. A., Steinbach, P. J., Kumke, M., and Eaton, W. A. (2005) Polyproline and The "Spectroscopic Ruler" Revisited with Single-Molecule Fluorescence, Proc. Natl. Acad. Sci. U.S.A. 102, 2754-2759.
36. Kapanidis, A. N., Laurence, T. A., Lee, N. K., Margeat, E., Kong, X., and Weiss, S. (2005) Alternating-Laser Excitation of Single Molecules, Acc. Chem. Res. 38, 523-533.
37. Nguyen, D. C., Keller, R. A., Jett, J. H., and Martin, J. C. (1987) Detection of Single Molecules of Phycoerythrin in Hydrodynamically Focused Flows by Laser-Induced Fluorescence, Anal. Chem. 59, 2158-2161.
38. Peck, K., Stryer, L., Glazer, A. N., and Mathies, R. A. (1989) Single-Molecule Fluorescence Detection: Autocorrelation Criterion and Experimental Realization with Phycoerythrin, Proc. Natl. Acad. Sci. U.S.A. 86, 4087-4091.
39. Whitten, W. B., Ramsey, J. M., Arnold, S., and Bronk, B. V. (1991) Single-Molecule Detection Limits in Levitated Micro-droplets, Anal. Chem. 63, 1027-1031.
40. Soper, S. A., Davis, L. M., and Shera, E. B. (1992) Detection and Identification of Single Molecules in Solution, J. Opt. Soc. Am. B 9, 1761-1769.
41. Zander, C., Sauer, M., Drexhage, K. H., Ko, D.-S., Schulz, A., Wolfrum, J., Brand, L., Eggeling, C., and Seidel, C. A. M. (1996) Detection and Characterization of Single Molecules in Aqueous Solution, Appl. Phys. B 63, 517-523.
42. Eggeling, C., Berger, S., Brand, L., Fries, J. R., Schaffer, J., Volkmer, A., and Seidel, C. A. M. (2001) Data Registration and Selective Analysis for Single-Molecule Fluorescence Spectroscopy Using Bifl, J. Biotechnol. 86, 163-180.
43. Kapanidis, A. N., Lee, N. K., Laurence, T. A., Doose, S., Margeat, E., and Weiss, S. (2004) Fluorescence-Aided Molecule Sorting: Analysis of Structure and Interactions by Alternating-Laser Excitation of Single Molecules, Proc. Natl. Acad. Sci. U.S.A. 101, 8936-8941.
44. Edman, L., Mets, Ü., and Rigler, R. (1996) Conformational Transitions Monitored for Single Molecules in Solution, Proc. Natl. Acad. Sci. U.S.A. 93, 6710-6715.
45. Magde, D., Elson, E., and Webb, W. W. (1972) Thermodynamic Fluctuations in a Reacting System-Measurement by Fluorescence Correlation Spectroscopy, Phys. Rev. Lett. 29, 705-708.
46. Elson, E. L., and Magde, D. (1974) Fluorescence Correlation Spectroscopy. I. Conceptual Basis and Theory, Biopolymers 13, 1-27.
47. Chen, Y., Müller, J. D., Berland, K. M., and Gratton, E. (1999) Fluorescence Fluctuation Spectroscopy, Methods 19, 234-252.
48. Hess, S. T., Huang, S., Heikal, A. A., and Webb, W. W. (2002) Biological and Chemical Applications of Fluorescence Correlation Spectroscopy. A Review, Biochemistry 41, 697-705.
49. Chattopadhyay, K., Saffarian, S., Elson, E. L., and Frieden, C. (2002) Measurement of Microsecond Dynamic Motion in the Intestinal Fatty Acid Binding Protein by Using Fluorescence Correlation Spectroscopy, Proc. Natl. Acad. Sci. U.S.A. 99, 14171-14176.
50. Haustein, E., and Schwille, P. (2003) Ultrasensitive Investigations of Biological Systems by Fluorescence Correlation Spectroscopy, Methods 29, 153-166.
51. Kapanidis, A. N., Laurence, T. A., Lee, N. K., Margeat, E., Kong, X., and Weiss, S. (2005) Alternating-Laser Excitation of Single Molecules, Acc. Chem. Res. 38, 523-533.
52. Haas, E. (2005) The Study of Protein Folding and Dynamics by Determination of Intramolecular Distance Distributions and Their Fluctuations Using Ensemble and Single-Molecule FRET Measurements, ChemPhysChem 6, 858-870.
53. Ha, T. (2001) Single-Molecule Fluorescence Resonance Energy Transfer, Methods 25, 78-86.
54. Deniz, A. A., Laurence, T. A., Dahan, M., Chemla, D. S., Schultz, P. G., and Weiss, S. (2001) Ratiometric Single-Molecule Studies of Freely Diffusing Biomolecules, Annu. Rev. Phys. Chem. 52, 233-253.
55. Stryer, L., and Haugland, R. P. (1967) Energy Transfer: A Spectroscopic Ruler, Proc. Natl. Acad. Sci. U.S.A. 58, 716-726.
56. van der Meer, B. W., Coker, G., and Chen, S.-Y. (1994) Resonance Energy Transfer: Theory and Data, VCH, New York.
57. Cognet, L., Harms, G. S., Blab, G. A., Lommerse, P. H. M., and Schmidt, T. (2000) Simultaneous Dual-Color and Dual-Polarization Imaging of Single Molecules, Appl. Phys. Lett. 77, 4052-4054.
58. Sabanayagam, C. R., Eid, J. S., and Meller, A. (2005) Using Fluorescence Resonance Energy Transfer to Measure Distances Along Individual DNA Molecules: Corrections Due to Nonideal Transfer, J. Chem. Phys. 122, 061103.
59. Laurence, T. A., Kong, X., Jager, M., and Weiss, S. (2005) Probing Structural Heterogeneities and Fluctuations of Nucleic Acids and Denatured Proteins, Proc. Natl. Acad. Sci. U.S.A. 102, 17348-17353.
60. Schuler, B. (2005) Single-Molecule Fluorescence Spectroscopy of Protein Folding, ChemPhysChem 6, 1206-1220.
61. Allen, M. W., Urbauer, R. J. B., Zaidi, A., Williams, T. D., Urbauer, J. L., and Johnson, C. K. (2004) Fluorescence Labeling, Purification and Immobilization of a Double Cysteine Mutant Calmodulin Fusion Protein for Single-Molecule Experiments, Anal. Biochem. 325, 273-284.
62. Eggeling, C., Widengren, J., Brand, L., Schaffer, J., Felekyan, S., and Seidel, C. A. M. (2006) Analysis of Photobleaching in Single-Molecule Multicolor Excitation and Foerster Resonance Energy Transfer Measurements, J. Phys. Chem. A 110, 2979-2995.
63. Slaughter, B. D., Allen, M. W., Unruh, J. R., Urbauer, R. J. B., and Johnson, C. K. (2004) Single-Molecule Resonance Energy Transfer and Fluorescence Correlation Spectroscopy of Calmodulin in Solution, J. Phys. Chem. B 108, 10388-10397.
64. Müller, B. K., Zaychikov, E., Brauchle, C., and Lamb, D. C. (2005) Pulsed Interleaved Excitation, Biophys. J. 89, 3508-3522.
65. Andrec, M., Levy, R. M., and Talaga, D. S. (2003) Direct Determination of Kinetic Rates from Single-Molecule Photon Arrival Trajectories Using Hidden Markov Models, J. Phys. Chem. A 107, 7454-7464.
66. Watkins, L. P., and Yang, H. (2004) Information Bounds and Optimal Analysis of Dynamic Single Molecule Measurements, Biophys. J. 86, 4015-4029.
67. McHale, K., Berglund, A. J., and Mabuchi, H. (2004) Bayesian Estimation for Species Identification in Single-Molecule Fluorescence Microscopy, Biophys. J. 86, 3409-3422.
68. Witkoskie, J. B., and Cao, J. (2004) Single Molecule Kinetics. II. Numerical Bayesian Approach, J. Chem. Phys. 121, 6373-6379.
69. Kou, S. C., Xie, X. S., and Liu, J. S. (2005) Bayesian Analysis of Single-Molecule Experimental Data, Appl. Statist. 54, 469-506.
70. McKinney, S. A., Joo, C., and Ha, T. (2006) Analysis of Single-Molecule FRET Trajectories Using Hidden Markov Modeling, Biophys. J. 91, 1941-1951.
71. Antonik, M., Felekyan, S., Gaiduk, A., and Seidel, C. A. (2006) Separating Structural Heterogeneities from Stochastic Variations in Fluorescence Resonance Energy Transfer Distributions Via Photon Distribution Analysis, J. Phys. Chem. B 110, 6970-8.
72. Ha, T., Laurence, T. A., Chemla, D. S., and Weiss, S. (1999) Polarization Spectroscopy of Single Fluorescent Molecules, J. Phys. Chem. B 103, 6839-6850.
73. Peterman, E. J., Sosa, H., and Moerner, W. E. (2004) Single-Molecule Fluorescence Spectroscopy and Microscopy of Biomolecular Motors, Annu. Rev. Phys. Chem. 55, 79-96.
74. Sosa, H., Peterman, E. J., Moerner, W. E., and Goldstein, L. S. (2001) Adp-Induced Rocking of the Kinesin Motor Domain Revealed by Single-Molecule Fluorescence Polarization Microscopy, Nat. Struct. Biol. 8, 540-544.
75. 2+-ATPase Bound to Oxidatively Modified Calmodulin, Biochemistry 43, 12937-12944.
76. 2+-ATPase by Calmodulin, Biophys. J. 87, 1892-1899.
77. 2+-ATPase, Biochemistry 44, 11074-11081.
78. Chin, D., and Means, A. R. (2000) Calmodulin: A Prototypical Calcium Sensor, Trends Cell Biol. 10, 322-328.
79. Yap, K. L., and Ikura, M. (2004) Calmodulin, Handb. Metalloproteins 3, 447-458.
80. Nelson, M. R., and Chazin, W. J. (1998) Calmodulin as a Calcium Sensor, in Calmodulin and Signal Transduction (Van Eldik, L. J., and Watterson, D. M., Eds.) pp 17-64, Academic Press, San Diego.
81. 2+ Sensor Proteins, Protein Sci. 7, 270-282.
82. Zhang, M., Tanaka, T., and Ikura, M. (1995) Calcium-Induced Conformational Transition Revealed by the Solution Structure of Apo Calmodulin, Nat. Struct. Biol. 2, 758-767.
83. Carafoli, E. (2002) Calcium Signaling: A Tale for All Seasons, Proc. Natl. Acad. Sci. U.S.A. 99, 1115-1122.
84. Babu, Y. S., Sack, J. S., Greenhough, T. J., Bugg, C. E., Means, W. E., and Cook, W. J. (1985) Three-Dimensional Structure of Calmodulin, Nature 315, 37-40.
85. Chattopadhyaya, R., Meador, W. E., Means, A. R., and Quiocho, F. A. (1992) Calmodulin Structure Refined at 1.7 Å Resolution, J. Mol. Biol. 228, 1177-1192.
86. Kretsinger, R. H. (1992) The Linker of Calmodulin: To Helix or Not to Helix, Cell Calcium 13, 363-376.
87. Persechini, A., and Kretsinger, R. H. (1988) The Central Helix of Calmodulin Functions as a Flexible Tether, J. Biol. Chem. 263, 12175-12178.
88. 2+-Calmodulin Reveals Flexible Hand-Like Properties of Its Domains, Nat. Struct. Biol. 8, 990-996.
89. 2+-Calmodulin, Structure 11, 1303-1307.
90. Slaughter, B. D., Unruh, J. R., Allen, M. W., Bieber Urbauer, R. J., and Johnson, C. K. (2005) Conformational Substates of Calmodulin Revealed by Single-Pair Fluorescence Resonance Energy Transfer: Influence of Solution Conditions and Oxidative Modification, Biochemistry 44, 3694-3707.
91. Slaughter, B. D., Bieber-Urbauer, R. J., and Johnson, C. K. (2005) Single-Molecule Tracking of Sub-Millisecond Domain Motion in Calmodulin, J. Phys. Chem. B 109, 12658-12662.
92. 2+ Calmodulin, Biochemistry 40, 14878-14890.
93. Allen, M. W., Bieber Urbauer, R. J., and Johnson, C. K. (2004) Single-Molecule Assays of Calmodulin Target Binding Detected with a Calmodulin Energy-Transfer Construct, Anal. Chem. 76, 3630-3637.
94. 15N Relaxation Using Inverse Detected Two-Dimensional NMR Spectroscopy: The Central Helix Is Flexible, Biochemistry 31, 5269-5278.
95. Kuboniwa, H., Tjandra, N., Grzesiek, S., Ren, H., Klee, C. B., and Bax, A. (1995) Solution Structure of Calcium-Free Calmodulin, Nat. Struct. Biol. 2, 768-776.
96. Masino, L., Martin, S. R., and Bayley, P. M. (2000) Ligand Binding and Thermodynamic Stability of a Multidomain Protein, Calmodulin, Protein Sci. 9, 1519-1529.
97. 2+ Binding to Calmodulin: Proteolytic Susceptibility of E31 and E87 Indicates Interdomain Interactions, Biochemistry 34, 1179-1196.
98. Biekofsky, R. R., Martin, S. R., McCormick, J. E., Masino, L., Fefeu, S., Bayley, P. M., and Feeney, J. (2002) Thermal Stability of Calmodulin and Mutants Studied by (1)H-(15)N HSQC NMR Measurements of Selectively Labeled [(15)N]Ile Proteins, Biochemistry 41, 6850-6859.
99. Slaughter, B. D., Unruh, J. R., Price, E. S., Huynh, J. L., Bieber Urbauer, R. J., and Johnson, C. K. (2005) Sampling Unfolding Intermediates in Calmodulin by Single-Molecule Spectroscopy, J. Am. Chem. Soc. 127, 12107-12114.
100. Zagrovic, B., Snow, C. D., Khaliq, S., Shirts, M. R., and Pande, V. S. (2002) Native-Like Mean Structure in the Unfolded Ensemble of Small Proteins, J. Mol. Biol. 323, 153-164.
101. Fitzkee, N. C., and Rose, G. D. (2004) Reassessing Random-Coil Statistics in Unfolded Proteins, Proc. Natl. Acad. Sci. U.S.A. 101, 12497-12502.
102. Millett, I. S., Doniach, S., and Plaxco, K. W. (2002) Toward a Taxonomy of the Denatured State: Small Angle Scattering Studies of Unfolded Proteins, Adv. Protein Chem. 62, 241-262.
103. Tan, X., Hu, D., Squier, T. C., and Lu, H. P. (2004) Probing Nanosecond Protein Motions of Calmodulin by Single-Molecule Fluorescence Anisotropy, Appl. Phys. Lett. 85, 2420-2422.
104. Frauenfelder, H., Sligar, S. G., and Wolynes, P. G. (1991) The Energy Landscapes and Motions of Proteins, Science 254, 1598-1603.
105. Eisenmesser, E. Z., Bosco, D. A., Akke, M., and Kern, D. (2002) Enzyme Dynamics During Catalysis, Science 295, 1520-1523.
106. Widengren, J., Mets, U., and Rigler, R. (1995) Fluorescence Correlation Spectroscopy of Triplet States in Solution: A Theoretical and Experimental Study, J. Phys. Chem. 99, 13368-13379.
107. Palmer, A. G., 3rd, and Thompson, N. L. (1987) Theory of Sample Translation in Fluorescence Correlation Spectroscopy, Biophys. J. 51, 339-343.
108. Eggeling, C., Kask, P., Winkler, D., and Jager, S. (2005) Rapid Analysis of Forster Resonance Energy Transfer by Two-Color Global Fluorescence Correlation Spectroscopy: Trypsin Proteinase Reaction, Biophys. J. 89, 605-618.
109. Johnson, C. K., Slaughter, B. D., Unruh, J. R., and Price, E. S. (2006) Fluorescence Probes of Protein Dynamics and Conformations in Freely Diffusing Molecules. Single-Molecule Resonance Energy Transfer and Time-Resolved Fluorescence Methods, in Reviews in Fluorescence (Geddes, C. D., and Lakowicz, J. R., Eds.) Vol. 3, pp 239-259, Springer, New York.
110. Yap, K. L., Kim, J., Truong, K., Sherman, M., Yuan, T., and Ikura, M. (2000) Calmodulin Target Database, J. Struct. Funct. Genomics 1, 8-14.
111. 2+, Caldesmon, and Myosin Light Chain Kinase Exchange with Calmodulin, J. Biol. Chem. 268, 7958-7964.
112. 2+ Dissociation from Complexes of Calmodulin with Nitric Oxide Synthase or Myosin Light Chain Kinase, J. Biol. Chem. 271, 62-67.
113. Penheiter, A. R., Filoteo, A. G., Penniston, J. T., and Caride, A. J. (2005) Kinetic Analysis of the Calmodulin-Binding Region of the Plasma Membrane Calcium Pump Isoform 4b, Biochemistry 44, 2009-2020.
114. Brasselet, S., Peterman, E. J. G., and Moerner, W. E. (2000) Single-Molecule Fluorescence Resonant Energy Transfer in Calcium Concentration Dependent Cameleon, J. Phys. Chem. B 104, 3676-3682.
115. Tang, J., Mei, E., Green, C., Kaplan, J., DeGrado, W. F., Smith, A. B., and Hochstrasser, R. M. (2004) Probing Structural Dynamics of Individual Calmodulin:Peptide Complexes in Hydrogels by Single-Molecule Confocal Microscopy, J. Phys. Chem. B 108, 15910-15918.
116. Liu, R., Hu, D., Tan, X., and Lu, H. P. (2006) Revealing Two-State Protein-Protein Interactions of Calmodulin by Single-Molecule Spectroscopy, J. Am. Chem. Soc. 128, 10034-10042.
117. 2+ Pump Interacts Both with Calmodulin and with Another Part of the Pump, J. Biol. Chem. 264, 12313-12321.
118. Slaughter, B. D. (2005) Single-Molecule Studies of Calmodulin Conformation, Dynamics, and Folding, Ph.D. Dissertation, University of Kansas, Lawrence, KS.
119. Carafoli, E. (1987) Intracellular Calcium Homeostasis, Annu. Rev. Biochem. 56, 395-433.
120. 2+ Pump, J. Membr. Biol. 165, 101-109.
121. 2+ Pump, J. Biol. Chem. 263, 14152-14159.
122. Penheiter, A. R., Bajzer, Z., Filoteo, A. G., Thorogate, R., Török, K., and Caride, A. J. (2003) A Model for the Activation of Plasma Membrane Calcium Pump Isoform 4b by Calmodulin, Biochemistry 42, 12115-12124.
123. Toyoshima, C., Nomura, H., and Tsuda, T. (2004) Lumenal Gating Mechanism Revealed in Calcium Pump Crystal Structures with Phosphate Analogues, Nature 432, 361-368.
124. 2+-ATPase, J. Mol. Biol. 316, 201-211.
125. 2+-ATPase by Hydrogen Peroxide and Protection by Calmodulin, Biochemistry 42, 12001-12010.
126. Gao, J., Yao, Y., and Squier, T. C. (2001) Oxidatively Modified Calmodulin Binds to the Plasma Membrane Ca-ATPase in a Nonproductive and Conformationally Disordered Complex, Biophys. J. 80, 1791-1801.
127. Babu, Y. S., Bugg, C. E., and Cook, W. J. (1988) Structure of Calmodulin Refined at 2.2 Å Resolution, J. Mol. Biol. 204, 191-204.
128. Humphrey, W., Dalke, A., and Schulten, K. (1996) VMD: Visual Molecular Dynamics, J. Mol. Graphics 14, 33-38.
129. Toyoshima, C., Nakasako, M., Nomura, H., and Ogawa, H. (2000) Crystal Structure of the Calcium Pump of Sarcoplasmic Reticulum at 2.6 Å Resolution, Nature 405, 647-655.
130. 2+-ATPase and Their Susceptibilities to Oxidation, J. Mol. Graphics Modell. 24, 175-185.