Dipolar Spectroscopy — Single–Resonance Methods
P. P. Borbat and J. H. Freed.
In EPR Spectroscopy: Fundamentals and Methods. D. Goldfarb, and S. Stoll, Eds. 139, 15530-15538 (2017)
Wiley & Sons: Chichester, UK.
<doi:10.1002/9780470034590.emrstm1519>
PMID: [None - Book]
PMCID: [None - Book]
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Key features of an Hsp70 chaperone allosteric landscape revealed by ion–mobility native mass spectrometry and double electron–electron resonance
A. L. Lai, E. M. Clerico, M. E. Blackburn, N. A. Patel, C. V. Robinson, P. P. Borbat, J. H. Freed, and L. M. Gierasch.
J. Biol. Chem. 292, 8773-8785 (2017)
Supporting Information
<doi:10.1074/jbc.M116.770404>
PMID: 28428246
PMCID: PMC5448104
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Stability and Conformation of a Chemoreceptor HAMP Domain Chimera Correlates with Signaling Properties
N. Sukomon, J. Widom, P. P. Borbat, J. H. Freed, and B. R. Crane.
Biophys. J. 112, 1383-1395 (2017)
Supporting Information
<doi:10.1016/j.bpj.2017.02.037>
PMID: 28402881
PMCID: PMC5390053
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Signature of an aggregation-prone conformation of tau
N. A. Eschmann, E. R. Georgieva, P. Ganguly, P. P. Borbat, M. D. Rappaport, Y. Akdogan, J. H. Freed, J. -E. Shea, and S. Han.
Sci. Rep. 7, 44739 (2017)
Supporting Information
<doi:10.1038/srep44739>
PMID: 28303942
PMCID: PMC5356194
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Bacterial Energy Sensor Aer Modulates the Activity of the Chemotaxis Kinase CheA Based on the Redox State of the Flavin Cofactor
D. Samanta, J. Widom, P. P. Borbat, J. H. Freed, and B. R. Crane.
J. Biol. Chem. 291, 25809-25814 (2016)
<doi:10.1074/jbc.C116.757492>
PMID: 27803157
PMCID: PMC5207056
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Conformational Response of Influenza A M2 Transmembrane Domain to Amantadine Drug Binding at Low pH (pH 5.5)
E. R. Georgieva, P. P. Borbat, K. Grushin, S. Stoilova-McPhie, N. J. Kulkarni, Z. Liang, and J. H. Freed.
Front. Physiol. 7, 317 (2016)
Supporting Information
<doi:10.3389/fphys.2016.00317>
PMID: 27524969
PMCID: PMC4965473
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Structural Basis for Activation, Assembly and Membrane Binding of ESCRT-III Snf7 Filaments
S. Tang, W. M. Henne, P. P. Borbat, N. J. Buchkovich, J. H. Freed, Y. Mao, J. C. Fromme, and S. D. Emr.
eLife 4 e12548 (2015)
Supporting Information
<doi:10.7554/eLife.12548>
PMID: 26670543
PMCID: PMC4720517
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Pulsed Dipolar Spectroscopy Reveals that Tyrosyl Radicals Are Generated in Both Monomers of the
Cyclooxygenase-2 Dimer
B. J. Orlando, P. P. Borbat, E. R. Georgieva, J. H. Freed, and M. G. Malkowski.
Biochemistry 54 7309-7312 (2015)
Supporting Information
<doi:10.1021/acs.biochem.5b00979>
PMID: 26636181
PMCID: PMC4707933
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Signal Transduction in Light-Oxygen-Voltage Receptors Lacking the Adduct-Forming Cysteine Residue
E.F. Yee, R.P. Diensthuber, A.T. Vaidya, P.P. Borbat, C. Engelhard, J.H. Freed, R. Bittl, A. Möglich, and B.R. Crane.
Nature Comm. 6 10079 (2015)
<doi:10.1038/ncomms10079>
PMID: 26648256
PMCID: PMC4682037
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Preformed Soluble Chemoreceptor Trimers That Mimic Cellular Assembly States and Activate CheA Autophosphorylation
A.R. Greenswag, X. Li, P.P. Borbat, D. Samanta, K.J. Watts, J.H. Freed, and B.R. Crane
Biochemistry 54, 3454-3468 (2015).
Supporting Information
<doi:10.1021/bi501570n>
PMID: 25967982
PMCID: PMC4772074
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Mechanism of Influenza A M2 Transmembrane Domain Assembly in Lipid Membranes
E.R. Georgieva, P.P. Borbat, H.D. Norman, and J.H. Freed
Sci. Rep. 5, 11757 (2015).
Supporting Information
<doi:10.1038/srep11757>
PMID: 26190831
PMCID: PMC4507135
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Assembly States of FliM and FliG Within the Flagellar Switch Complex
R. Sircar, P.P. Borbat, M.J. Lynch, J. Bhatnagar, M.S. Beyersdorf, C.J. Halkides, J.H. Freed and B.R. Crane.
J. Mol. Biol. 427, 867-886 (2015).
Supporting Information
<doi:10.1016/j.jmb.2014.12.009>
PMID: 25536293
PMCID: PMC4323944
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Bacterial Chemoreceptor Dynamics Correlate With Activity State and Are Coupled Over Long Distances
D. Samanta, P.P. Borbat, B. Dzikovski, J.H. Freed, and B.R. Crane.
Proc. Natl. Acad. Sci. U. S. A. 112, 2455-2460 (2015).
Supporting Information
<doi:10.1073/pnas.1414155112>
PMID: 25675479
PMCID: PMC4345563
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Pulse Dipolar ESR of Doubly Labeled Mini TAR DNA and Its Annealing to Mini TAR RNA
Y. Sun, P.P. Borbat, V.M. Grigoryants, W.K. Myers, J.H. Freed, and C.P. Scholes.
Biophys. J. 108, 893-902 (2015).
Supporting Information
<doi:10.1016/j.bpj.2014.12.028>
PMID: 25692594
PMCID: PMC4336369
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Transport Domain Unlocking Sets the Uptake Rate of an Aspartate Transporter
N. Akyuz, E.R. Georgieva, Z. Zhou, S. Stolzenberg, M.A. Cuendet, G. Khelashvili, R.B. Altman, D.S. Terry, J.H. Freed, H. Weinstein, O. Boudker, and S.C. Blanchard.
Nature 518, 68-73 (2015).
<doi:10.1038/nature14158>
PMID: 25652997
PMCID: PMC4351760
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Tau Binds to Lipid Membrane Surfaces via Short Amphipathic Helices Located in Its Microtubule-Binding Repeats
E.R. Georgieva, S. Xiao, P.P. Borbat, J.H. Freed, and D. Eliezer.
Biophys. J. 107, 1441-1452 (2014).
Supporting Information
<doi:10.1016/j.bpj.2014.07.046>
PMID: 25229151
PMCID: PMC4167292
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Copper-Based Pulsed Dipolar ESR Spectroscopy as a Probe of Protein Conformation Linked to Disease States
G.E. Merz, P.P. Borbat, A.J. Pratt, E.D. Getzoff, J.H. Freed, and B.R. Crane.
Biophys. J. 107, 1669-1674 (2014).
Supporting Information
<doi:10.1016/j.bpj.2014.07.068>
PMID: 25296320
PMCID: PMC4190658
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Aggregation Propensities of Superoxide Dismutase G93 Hotspot Mutants Mirror ALS Clinical Phenotypes
A.J. Pratt, D.S. Shin, G.E. Merz, R.P. Rambo, W.A. Lancaster, K.N. Dyer, P.P. Borbat, F.L. Poole II, M.W.W. Adams, J.H. Freed, B.R. Crane, J.A. Tainer, and E.D. Getzoff.
Proc. Natl. Acad. Sci. U. S. A. 111, E4568-E4576 (2014).
<doi:10.1073/pnas.1308531111>
PMID: 25316790
PMCID: PMC4217430
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Pulse Dipolar Electron Spin Resonance: Distance Measurements
P.P. Borbat and J.H. Freed.
In Structural Information from Spin-Labels and Intrinsic Paramagnetic Centers in the Biosciences. Structure and Bonding. Vol. 152. J. Harmer and C. Timmel, Eds.
Springer: Heidelberg, Germany; New York, USA, 2013; pp. 1-82.
<doi:10.1007/430_2012_82>
PMID: [None - Book]
PMCID: [None - Book]
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Architecture of the Soluble Receptor Aer2 Indicates an In-Line Mechanism for PAS and HAMP Domain Signaling
M.V. Airola, D. Huh, N. Sukomon, J. Widom, R. Sircar, P.P. Borbat, J.H. Freed, K.J. Watts, and B.R. Crane.
J. Mol. Biol. 425, 886-901 (2013).
Supporting Information
<doi:10.1016/j.jmb.2012.12.011>
PMID: 23274111
PMCID: PMC3577987
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HAMP Domain Conformers that Propagate Opposite Signals in Bacterial Chemoreceptors
M.V. Airola, N. Sukomon, D. Samanta, P.P. Borbat, J.H. Freed, K.J. Watts, and B.R. Crane.
PLoS Biol. 11, e1001479, (2013).
Supporting Information
<doi:10.1371/journal.pbio.1001479>
PMID: 23424282
PMCID: PMC3570549
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Improved Sensitivity for Long-Distance Measurements in Biomolecules: Five-Pulse Double Electron-Electron Resonance
P.P. Borbat, E.R. Georgieva, and J.H. Freed.
J. Phys. Chem. Lett. 4, 170-175 (2013).
Supporting Information
<doi:10.1021/jz301788n>
PMID: 23301118
PMCID: PMC3538160
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Conformational Ensemble of the Sodium-Coupled Aspartate Transporter
E.R. Georgieva, P.P. Borbat, C. Ginter, J.H. Freed, and O. Boudker.
Nat. Struct. Mol. Biol. 20, 215-221 (2013).
Supporting Information
<doi:10.1038/nsmb.2494>
PMID: 23334289
PMCID: PMC3565060
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Locating a Lipid at the Portal to the Lipoxygenase Active Site
B.J. Gaffney, M. Bradshaw, S. Frausto, F. Wu, J.H. Freed, and P.P. Borbat.
Biophysical J. 103, 2134-2144, (2012).
Supporting Information
<doi:10.1016/j.bpj.2012.10.002>
PMID: 23200047
PMCID: PMC3512035
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Pulsed ESR Dipolar Spectroscopy for Distance Measurements in Immobilized Spin Labeled Proteins in Liquid Solution
Z. Yang, Y. Liu, P.P. Borbat, J.L. Zweier, J.H. Freed, and W.L. Hubbell.
J. Am. Chem. Soc. 134, 9950-9952 (2012).
Supporting Information
<doi:10.1021/ja303791p>
PMID: 22676043
PMCID: PMC3409244
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Self-Association of the Histidine Kinase CheA as Studied by Pulsed Dipolar ESR Spectroscopy
J. Bhatnagar, R. Sircar, P.P. Borbat, J.H. Freed, and B.R. Crane.
Biophys. J. 102, 2192-2201 (2012).
Supporting Information
<doi:10.1016/j.bpj.2012.03.038>
PMID: 22824284
PMCID: PMC3341552
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Effect of Freezing Conditions on Distances and Their Distributions Derived From Double Electron Electron Resonance (DEER): A Study of Doubly-Spin-Labeled T4 Lysozyme
E.R. Georgieva, A.S. Roy, V.M. Grigoryants, P.P. Borbat, K.A. Earle, C.P. Scholes, and J.H. Freed.
J. Magn. Reson. 216, 69-77 (2012).
Supporting Information
<doi:10.1016/j.jmr.2012.01.004>
PMID: 22341208
PMCID: PMC3323113
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Distance Measurements: Continuous-Wave (CW)- and Pulsed Dipolar EPR
S.K. Misra and J.H. Freed.
In Multifrequency Electron Paramagnetic Resonance, S.K. Misra, Ed.
Wiley-VCH: New York, 2011; Chapter 12, pp. 545-588.
PMID: [None - Book]
PMCID: [None - Book]
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Channel and Nonchannel Forms of Spin-Labeled Gramicidin in Membranes and Their Equilibria
B.G. Dzikovski, P.P. Borbat, and J.H. Freed.
J. Phys. Chem. B 115, 176-185 (2011).
Supporting Information
<doi:10.1021/jp108105k>
PMID: 21142163
PMCID: PMC3076037
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The Lipid-Binding Domain of Wild Type and Mutant α-Synuclein: Compactness and Interconversion Between the Broken and Extended Helix Forms
E.R. Georgieva, T.F. Ramlall, P.P. Borbat, J.H. Freed, and D. Eliezer.
J. Biol. Chem. 285, 28261-28274 (2010).
Supporting Information
<doi:10.1074/jbc.M110.157214>
PMID: 20592036
PMCID: PMC2934691
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Structure of the Ternary Complex Formed by a Chemotaxis Receptor Signaling Domain, the CheA Histidine Kinase, and the Coupling Protein CheW As Determined by Pulsed Dipolar ESR Spectroscopy
J. Bhatnagar, P.P. Borbat, A.M. Pollard, A.M. Bilwes, J.H. Freed, and B.R. Crane.
Biochemistry, 49, 3824-3841 (2010).
Supporting Information
<doi:10.1021/bi100055m>
PMID: 20355710
PMCID: PMC2873776
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Molecular-Scale Force Measurement in a Coiled-Coil Peptide Dimer by Electron Spin Resonance
S.V. Gullà, G. Sharma, P.Borbat, J.H. Freed, H. Ghimire, M.R. Benedikt, N.L. Holt, G.A. Lorigan, K. Rege, C. Mavroidis, and D.E. Budil.
J. Am. Chem. Soc. 131, 5374-5375 (2009).
Supporting Information
<doi:10.1021/ja900230w>
PMID: 19331323
PMCID: PMC2888838
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Calculation of Double-Quantum-Coherence Two-dimensional Spectra: Distance Measurements and Orientational Correlations
S.K. Misra, P.P. Borbat, J.H. Freed.
Appl. Magn. Reson. 36, 237-258 (2009).
<doi:10.1007/s00723-009-0023-5>
PMID: 20161423
PMCID: PMC2786184
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A Scissors Mechanism for Stimulation of SNARE-Mediated Lipid Mixing by Cholesterol
J. Tong, P.P. Borbat, J.H. Freed, and Y.-K. Shin.
PNAS 106, 5141-5146 (2009).
<doi:10.1073/pnas.0813138106>
PMID: 19251653
PMCID: PMC2663986
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Membrane-Bound α-Synuclein Forms an Extended Helix: Long-Distance Pulsed ESR Measurements Using Vesicles, Bicelles, and Rodlike Micelles
E.R. Georgieva, T.F. Ramlall, P.P. Borbat, J.H. Freed, and D. Eliezer.
J. Am. Chem. Soc. 130, 12856-12857 (2008).
Supporting Information
<doi:10.1021/ja804517m>
PMID: 18774805
PMCID: PMC2626176
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Determination of the Oligomeric States of Human and Rat Monoamine Oxidases in the Outer Mitochondrial Membrane and Octyl β-D-Glucopyranoside Micelles Using Pulsed Dipolar Electron Spin Resonance Spectroscopy
A.K. Upadhyay, P.P. Borbat, J. Wang, J.H. Freed, and D.E. Edmondson.
Biochemistry 47, 1554-1566 (2008).
<doi:10.1021/bi7021377>
PMID: 18198902
PMCID: [accepted before 04/08]
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Pros and Cons of Pulse Dipolar ESR: DQC and DEER
P.P. Borbat and J.H. Freed.
EPR Newletter 17, 21-33 (2007).
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Conformational Motion of the ABC Transporter MsbA Induced by ATP Hydrolysis
P.P. Borbat, K. Surendhran, M. Bortolus, P. Zou, J.H. Freed, H.S. Mchaourab.
PLoS Biology 5, 2211-2219 (2007).
Supporting Information
<doi:10.1371/journal.pbio.0050271>
PMID: 17927448
PMCID: PMC2001213
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Rigid Body Refinement of Protein Complexes with Long-Range Distance Restraints from Pulsed Dipolar ESR
J. Bhatnagar, J.H. Freed, and B.R. Crane.
In Two-Component Signaling Systems, Part B, M. Simon, B.R. Crane and A.B. Crane, Eds.
Methods in Enzymology 423, Ch. 4, pp. 117-133 (2007).
<doi:10.1016/S0076-6879(07)23004-6>
PMID: 17609128
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Measuring Distances by Pulsed Dipolar ESR Spectroscopy: Spin-Labeled Histidine Kinases
P.P. Borbat and J.H. Freed.
In Two-Component Signaling Systems, Part B, M. Simon, B.R. Crane and A.B. Crane, Eds.
Methods in Enzymology 423, Ch. 3, pp. 52-116 (2007).
<doi:10.1016/S0076-6879(07)23003-4>
PMID: 17609127
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Characterizing the Structure and Dynamics of Folded Oligomers: Pulsed ESR Studies of Peptoid Helices
A.T. Fafarman, P.P. Borbat, J.H. Freed and K. Kirshenbaum.
Chem. Comm., 377-379 (2007).
<doi:10.1039/b612198e>
PMID: 17220976
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Inter-Helix Distances in Lysophospholipid Micelle-Bound α-Synuclein from Pulsed ESR Measurements
P. Borbat, T.F. Ramlall, J.H. Freed, and D. Eliezer.
J. Am. Chem. Soc. 128, 10004-05 (2006).
Supporting Information
<doi:10.1021/ja063122l>
PMID: 16881616
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Two-Pulse Electron Spin Echo Study of Deuterium-Helium Solids
E.P. Bernard, V.V. Khmelenko, E. Vehmanen, P.P. Borbat, J.H. Freed, and D.M. Lee.
Proc. 24th Intl. Conf. on Low Temp. Physics, 372-373 (2006).
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Pulse Electron Spin Resonance Method for Investigation of Atoms in Impurity-Helium Solids
E.P. Bernard, V.V. Khmelenko, E. Vehmanen, P.P. Borbat, J.H. Freed, and D.M. Lee.
Proc. 24th Intl. Conf. on Low Temp. Physics, 1659-1660 (2006).
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Reconstruction of the Chemotaxis Receptor-Kinase Assembly
S.-Y. Park, P.P. Borbat, G. Gonzalez-Bonet, J. Bhatnagar, A.M. Pollard, J.H. Freed, A.M. Bilwes & B.R. Crane.
Nat. Struct. Molec. Biol. 13, 400-407 (2006).
Supporting Information
<doi:10.1038/nsmb1085>
PMID: 16622408
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EPR Distance Measurements Support a Model for Long-Range Radical Initiation in E. coli Ribonucleotide Reductase
M. Bennati, J.H. Robblee, V. Mugnaini, J. Stubbe, J.H. Freed, and P. Borbat.
J. Am. Chem. Soc. 127, 15014-15015 (2005).
<doi:10.1021/ja054991y>
PMID: 16248626
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Effects of Finite Pulse Width on Two-Dimensional Fourier Transform Electron Spin Resonance
Z. Liang, R.H. Crepeau, J.H. Freed.
J. Magn. Reson. 177, 247-260 (2005).
<doi:10.1016/j.jmr.2005.07.024>
PMID: 16150620
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The Determination of Pair Distance Distributions by Pulsed ESR Using Tikhonov Regularization
Y.-W. Chiang, P.P. Borbat, J.H. Freed.
J. Magn. Reson. 172, 279-295 (2005).
<doi:10.1016/j.jmr.2004.10.012>
PMID: 15649755
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Spin-Labeled Gramicidin A: Channel Formation and Dissociation
B.G. Dzikovski, P.P. Borbat, and J.H. Freed.
Biophys. J. 87, 3504-3517 (2004).
<doi:10.1529/biophysj.104.044305>
PMID: 15326023
PMCID: PMC1304816
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Measurement of Large Distances in Biomolecules Using Double-Quantum Filtered Refocused Electron Spin-Echoes
P.P. Borbat, J.H. Davis, S.E. Butcher, and J.H. Freed.
J. Am. Chem. Soc. 126, 7746-7747 (2004).
<doi:10.1021/ja049372o>
PMID: 15212500
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Protein Structure Determination Using Long-Distance Constraints from Double-Quantum Coherence ESR: Study of T4 Lysozyme
P.P. Borbat, H.S. Mchaourab, and J.H. Freed.
J. Am. Chem. Soc. 124, 5304-5314 (2002).
<doi:10.1021/ja020040y>
PMID: 11996571
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Electron Spin Resonance in Studies of Membranes and Proteins
P.P. Borbat, A.J. Costa-Filho, K.A. Earle, J.K. Moscicki, J.H. Freed.
Science 291, 266-269, (2001).
<doi:10.1126/science.291.5502.266>
PMID: 11253218
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Double Quantum ESR and Distance Measurements
P.P. Borbat and J.H. Freed.
In Distance Measurements in Biological Systems by EPR, L.J. Berliner, S.S. Eaton, and G.R, Eaton, Eds.
Biological Magnetic Resonance 19, Chapter 9, pp. 383-459 (2000). (Kluwer, NY).
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Multiple-Quantum ESR and Distance Measurements
P.P. Borbat and J.H. Freed.
Chem. Phys. Lett. 313, 145-154 (1999).
<doi:10.1016/S0009-2614(99)00972-0>
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