A pulsed EPR method to determine distances between paramagnetic centers with strong spectral anisotropy and radicals: The dead-time free RIDME sequence

Journal of Magnetic Resonance

Volumn 201, Issue 1, 2009, Pages 48-56

  Milikisyants, Sergey ^a   Scarpelli, Francesco ^a   Finiguerra, Michelina G ^a,b   Ubbink, Marcellus ^b   Huber, Martina ^a  

^a LEIDEN UNIVERSITY   (Netherlands)

^b LEIDEN UNIVERSITY   (Netherlands)

Author keywords

Distance determination; Pulsed EPR; RIDME; Transition metal ion centers

Indexed keywords

DEADTIME; DIPOLAR INTERACTION; DISTANCE DETERMINATION; FAST RELAXATION; FULL CURVE; LARGE PARTS; MEASURE DISTANCE; METAL CENTERS; NITROXIDES; PARAMAGNETIC CENTERS; PULSE SEQUENCE; PULSED EPR; RIDME; SPIN LABEL; SPIN-FLIP; TRANSITION-METAL ION CENTERS;

ANISOTROPY; BIOLOGICAL SYSTEMS; ELECTRON RESONANCE; ELECTRON SPIN RESONANCE SPECTROSCOPY; IRON COMPOUNDS; LABELS; METAL IONS; PARAMAGNETIC MATERIALS; PARAMAGNETIC RESONANCE; QUANTUM THEORY; SPIN DYNAMICS; TRANSITION METALS;

TRACE ELEMENTS;

BACTERIAL PROTEIN; CYTOCHROME F; FREE RADICAL; NITROGEN OXIDE;

ALGORITHM; ANISOTROPY; ARTICLE; CHEMISTRY; ELECTRON SPIN RESONANCE; GENETICS; METABOLISM; METHODOLOGY; MUTAGENESIS; NOSTOC; PLASMID; SPIN LABELING; STANDARD;

ALGORITHMS; ANISOTROPY; BACTERIAL PROTEINS; CYTOCHROMES F; ELECTRON SPIN RESONANCE SPECTROSCOPY; FREE RADICALS; MUTAGENESIS; NITROGEN OXIDES; NOSTOC; PLASMIDS; REFERENCE STANDARDS; SPIN LABELS;

EID: 70349734868     PISSN: 10907807     EISSN: 10960856     Source Type: Journal    
DOI: 10.1016/j.jmr.2009.08.008     Document Type: Article

References (37)

1. Schiemann O., and Prisner T.F. Long-range distance determinations in biomacromolecules by EPR spectroscopy. Quarterly Reviews of Biophysics 40 (2007) 1-53
2. Borbat P.P., and Freed J.H. Measuring distances by pulsed dipolar ESR spectroscopy: spin-labeled histidine kinases. Two-Component Signaling Systems, Pt. B 423 (2007) 52-116
3. Jeschke G., and Polyhach Y. Distance measurements on spin-labelled biomacromolecules by pulsed electron paramagnetic resonance. Physical Chemistry Chemical Physics 9 (2007) 1895-1910
4. Milov A.D., Salikhov K.M., and Shchirov M.D. Application of the double resonance method to electron spin echo in a study of the spatial distribution of paramagnetic centers in solids. Soviet Physics Solid State (Fizika Tverdogo Tela) 23 (1981) 565-569
5. Saxena S., and Freed J.H. Double quantum two-dimensional Fourier transform electron spin resonance. Distance measurements. Chemical Physics Letters 251 (1996) 102-110
6. Saxena S., and Freed J.H. Theory of double quantum two-dimensional electron spin resonance with application to distance measurements. Journal of Chemical Physics 107 (1997) 1317-1340
7. Jeschke G., Pannier M., Godt A., and Spiess H.W. Dipolar spectroscopy and spin alignment in electron paramagnetic resonance. Chemical Physics Letters 331 (2000) 243-252
8. Borbat P.P., and Freed J.H. Multiple-quantum ESR and distance measurements. Chemical Physics Letters 313 (1999) 145-154
9. Narr E., Godt A., and Jeschke G. Selective measurements of a nitroxide-nitroxide separation of 5 nm and a nitroxide-copper separation of 2.5 nm in a terpyridine-based copper(II) complex by pulse EPR spectroscopy. Angewandte Chemie-International Edition 41 (2002) 3907-3910
10. van Amsterdam I.M.C., Ubbink M., Canters G.W., and Huber M. Measurement of a Cu-Cu distance of 26 Å by a pulsed EPR method. Angewandte Chemie-International Edition 42 (2003) 62-64
11. Bode B.E., Plackmeyer J., Prisner T.F., and Schiemann O. PELDOR measurements on a nitroxide-labeled Cu(II) porphyrin: orientation selection, spin-density distribution, and conformational flexibility. Journal of Physical Chemistry A 112 (2008) 5064-5073
12. Yang Z., Becker J., and Saxena S. On Cu(II)-Cu(II) distance measurements using pulsed electron double resonance. Journal of Magnetic Resonance 188 (2007) 337-343
13. Astashkin A.V., Seravalli J., Mansoorabadi S.O., Reed G.H., and Ragsdale S.W. Pulsed electron paramagnetic resonance experiments identify the paramagnetic intermediates in the pyruvate ferredoxin oxidoreductase catalytic cycle. Journal of the American Chemical Society 128 (2006) 3888-3889
14. Berliner L.J., Eaton S.S., and Eaton G.R. Distance Measurements in Biological Systems by EPR (2000), Kluver Academic/Plenum Publishers, New York
15. Eaton S.S., and Eaton G.R. Electron paramagnetic resonance techniques for measuring distances in proteins. Structures and Mechanisms: From Ashes to Enzymes 827 (2002) 321-339
16. Eaton S.S., and Eaton G.R. Interaction of spin labels with transition metals; Part 2. Coordination Chemistry Reviews 83 (1988) 29-72
17. Lyubenova S., Siddiqui M.K., de Vries M.J.M.P., Ludwig B., and Prisner T.F. Protein-protein interactions studied by EPR relaxation measurements: cytochrome c and cytochrome c oxidase. Journal Physics Chemistry B 111 (2007) 3839-3846
18. Ulyanov D., Bowler B.E., Eaton G.R., and Eaton S.S. Electron-electron distances in spin-labeled low-spin metmyoglobin variants by relaxation enhancement. Biophysical Journal 95 (2008) 5306-5316
19. Jäger H., Koch A., Maus V., Spiess H.W., and Jeschke G. Relaxation-based distance measurements between a nitroxide and a lanthanide spin label. Journal of Magnetic Resonance 194 (2008) 254-263
20. Kulik L.V., Dzuba S.A., Grigoryev I.A., and Tsvetkov Y.D. Electron dipole-dipole interaction in ESEEM of nitroxide biradicals. Chemical Physics Letters 343 (2001) 315-324
21. Kulik L.V., Grishin Y.A., Dzuba S.A., Grigoryev I.A., Klyatskaya S.V., Vasilevsky S.F., and Tsvetkov Y.D. Electron dipole-dipole ESEEM in field-step ELDOR of nitroxide biradicals. Journal of Magnetic Resonance 157 (2002) 61-68
22. Albarran C., Navarro J.A., Molina-Heredia F.P., Murdoch P.S., De la Rosa M.A., and Hervas M. Laser flash-induced kinetic analysis of cytochrome f oxidation by wild-type and mutant plastocyanin from the cyanobacterium Nostoc sp. PCC 7119. Biochemistry 44 (2005) 11601-11607
23. A. Abragam, B.I. Bleaney, Electron Paramagnetic Resonance of Transition Ions, Oxford University Press, New York, 1970.
24. Pake G.E. Nuclear resonance absorption in hydrated crystals-fine structure of the proton line. Journal of Chemical Physics 16 (1948) 327-336
25. Bloom A.L. Nuclear induction in inhomogeneous fields. Physical Review 98 (1955) 1105-1111
26. Pannier M., Veit S., Godt A., Jeschke G., and Spiess H.W. Dead-time free measurement of dipole-dipole interactions between electron spins. Journal of Magnetic Resonance 142 (2000) 331-340
27. Kulik L.V., Grigor'ev I.A., Salnikov E.S., Dzuba S.A., and Tsvetkov Y.D. Electron spin-echo envelope modulation induced by slow intramolecular motion. Journal of Physical Chemistry A 107 (2003) 3692-3695
28. Savitsky A., Dubinskii A.A., Flores M., Lubitz W., and Möbius K. Orientation-resolving pulsed electron dipolar high-field EPR spectroscopy on disordered solids: I. Structure of spin-correlated radical pairs in bacterial photosynthetic reaction centers. Journal of Physical Chemistry B 111 (2007) 6245-6262
29. Jeschke G., Koch A., Jonas U., and Godt A. Direct conversion of EPR dipolar time evolution data to distance distributions. Journal of Magnetic Resonance 155 (2002) 72-82
30. Jeschke G., Chechik V., Ionita P., Godt A., Zimmermann H., Banham J., Timmel C.R., Hilger D., and Jung H. DeerAnalysis2006-a comprehensive software package for analyzing pulsed ELDOR data. Applied Magnetic Resonance 30 (2006) 473-498
31. Jeschke G. Determination of the nanostructure of polymer materials by electron paramagnetic resonance spectroscopy. Macromolecular Rapid Communications 23 (2002) 227-246
32. Schünemann V., Trautwein A.X., Illerhaus J., and Haehnel W. Mossbauer and electron paramagnetic resonance studies of the cytochrome b f complex. Biochemistry 38 (1999) 8981-8991
33. Zhou Y., Bowler B.E., Eaton G.R., and Eaton S.S. Electron spin lattice relaxation rates for S = 1/2 molecular species in glassy matrices or magnetically dilute solids at temperatures between 10 and 300 K. Journal of Magnetic Resonance 139 (1999) 165-174
34. Du J.L., Eaton G.R., and Eaton S.S. Temperature, orientation, and solvent dependence of electron spin-lattice relaxation rates for nitroxyl radicals in glassy solvent and doped solids. Journal of magnetic resonance, Series A 115 (1994) 213-221
35. Volkov A.N., Worrall J.A.R., Holtzmann E., and Ubbink M. Solution structure and dynamics of the complex between cytochrome c and cytochrome c peroxidase determined by paramagnetic NMR. Proceedings of The National Academy of Sciences of The United States of America 103 (2006) 18945-18950
36. Finiguerra M.G., Prudencio M., Ubbink M., and Huber M. Accurate long-range distance measurements in a doubly spin-labeled protein by a four-pulse, double electron-electron resonance method. Magnetic Resonance in Chemistry 46 (2008) 1096-1101
37. Polyhach Y., Godt A., Bauer C., and Jeschke G. Spin pair geometry revealed by high-field DEER in the presence of conformational distributions. Journal of Magnetic Resonance 185 (2007) 118-129