1
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Wolke CT, DeBlase AF, Leavitt CM, McCoy AB, Johnson MA. Diffuse Vibrational Signature of a Single Proton Embedded in the Oxalate Scaffold, HO2CCO2(-). J Phys Chem A 2015; 119:13018-24. [PMID: 26608571 DOI: 10.1021/acs.jpca.5b10649] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
To understand how the D2d oxalate scaffold (C2O4)(2-) distorts upon capture of a proton, we report the vibrational spectra of the cryogenically cooled HO2CCO2(-) anion and its deuterated isotopologue DO2CCO2(-). The transitions associated with the skeletal vibrations and OH bending modes are sharp and are well described by inclusion of cubic terms in the normal mode expansion of the potential surface through an extended Fermi resonance analysis. The ground state structure features a five-membered ring with an asymmetric intramolecular proton bond. The spectral signatures of the hydrogen stretches, on the contrary, are surprisingly diffuse, and this behavior is not anticipated by the extended Fermi scheme. We trace the diffuse bands to very strong couplings between the high-frequency OH-stretch and the low-frequency COH bends as well as heavy particle skeletal deformations. A simple vibrationally adiabatic model recovers this breadth of oscillator strength as a 0 K analogue of the motional broadening commonly used to explain the diffuse spectra of H-bonded systems at elevated temperatures, but where these displacements arise from the configurations present at the vibrational zero-point level.
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Affiliation(s)
- Conrad T Wolke
- Sterling Chemistry Laboratory, Yale University , New Haven, Connecticut 06520, United States
| | - Andrew F DeBlase
- Sterling Chemistry Laboratory, Yale University , New Haven, Connecticut 06520, United States.,Department of Chemistry, Purdue University , West Lafayette, Indiana 47907, United States
| | - Christopher M Leavitt
- Sterling Chemistry Laboratory, Yale University , New Haven, Connecticut 06520, United States
| | - Anne B McCoy
- Department of Chemistry, University of Washington , Seattle, Washington 98195, United States
| | - Mark A Johnson
- Sterling Chemistry Laboratory, Yale University , New Haven, Connecticut 06520, United States
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2
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Hernandez FJ, Brice JT, Leavitt CM, Liang T, Raston PL, Pino GA, Douberly GE. Mid-infrared signatures of hydroxyl containing water clusters: Infrared laser Stark spectroscopy of OH–H2O and OH(D2O)n (n = 1-3). J Chem Phys 2015; 143:164304. [DOI: 10.1063/1.4933432] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Federico J. Hernandez
- Department of Chemistry, University of Georgia, Athens, Georgia 30602, USA
- INFIQC, Dpto. de Fisicoquímica, Facultad de Ciencias Químicas, Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba, Ciudad Universitaria, Pabellón, X5000HUA Córdoba, Argentina
| | - Joseph T. Brice
- Department of Chemistry, University of Georgia, Athens, Georgia 30602, USA
| | | | - Tao Liang
- Department of Chemistry, University of Georgia, Athens, Georgia 30602, USA
| | - Paul L. Raston
- Department of Chemistry and Biochemistry, James Madison University, Harrisonburg, Virginia 22807, USA
| | - Gustavo A. Pino
- INFIQC, Dpto. de Fisicoquímica, Facultad de Ciencias Químicas, Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba, Ciudad Universitaria, Pabellón, X5000HUA Córdoba, Argentina
| | - Gary E. Douberly
- Department of Chemistry, University of Georgia, Athens, Georgia 30602, USA
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3
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Hernandez FJ, Brice JT, Leavitt CM, Pino GA, Douberly GE. Infrared Spectroscopy of OH··CH3OH: Hydrogen-Bonded Intermediate Along the Hydrogen Abstraction Reaction Path. J Phys Chem A 2015; 119:8125-32. [DOI: 10.1021/acs.jpca.5b04875] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Federico J. Hernandez
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
- INFIQC,
Dpto. de Fisicoquímica, Facultad de Ciencias Químicas,
Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba, Ciudad Universitaria, Pabellón. X5000HUA Córdoba, Argentina
| | - Joseph T. Brice
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
| | | | - Gustavo A. Pino
- INFIQC,
Dpto. de Fisicoquímica, Facultad de Ciencias Químicas,
Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba, Ciudad Universitaria, Pabellón. X5000HUA Córdoba, Argentina
| | - Gary E. Douberly
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
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4
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Leavitt CM, Moore KB, Raston PL, Agarwal J, Moody GH, Shirley CC, Schaefer HF, Douberly GE. Liquid Hot NAGMA Cooled to 0.4 K: Benchmark Thermochemistry of a Gas-Phase Peptide. J Phys Chem A 2014; 118:9692-700. [DOI: 10.1021/jp5092653] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | | | - Paul L. Raston
- Department
of Chemistry, University of Adelaide, Adelaide, SA 5005, Australia
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5
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Johnson CJ, Dzugan LC, Wolk AB, Leavitt CM, Fournier JA, McCoy AB, Johnson MA. Microhydration of contact ion pairs in M(2+)OH(-)(H2O)(n=1-5) (M = Mg, Ca) clusters: spectral manifestations of a mobile proton defect in the first hydration shell. J Phys Chem A 2014; 118:7590-7. [PMID: 24874345 DOI: 10.1021/jp504139j] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Vibrational predissociation spectra of D2-"tagged" Mg(2+)OH(-)(H2O)n=1-6 and Ca(2+)OH(-)(H2O)n=1-5 clusters are reported to explore how the M(2+)OH(-) contact ion pairs respond to stepwise formation of the first hydration shell. In both cases, the hydroxide stretching frequency is found to red-shift strongly starting with addition of the third water molecule, quickly becoming indistinguishable from nonbonded OH groups associated with solvent water molecules by n = 5. A remarkably broad feature centered around 3200 cm(-1) and spanning up to ∼1000 cm(-1) appears for the n ≥ 4 clusters that we assign to a single-donor ionic hydrogen bond between a proximal first solvent shell water molecule and the embedded hydroxide ion. The extreme broadening is rationalized with a theoretical model that evaluates the range of local OH stretching frequencies predicted for the heavy particle configurations available in the zero-point vibrational wave function describing the low-frequency modes. The implication of this treatment is that extreme broadening in the vibrational spectrum need not arise from thermal fluctuations in the ion ensemble, but can rather reflect combination bands based on the OH stretching fundamental that involve many quanta of low-frequency modes whose displacements strongly modulate the OH stretching frequency.
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Affiliation(s)
- Christopher J Johnson
- Sterling Chemistry Laboratory, Department of Chemistry, Yale University , 225 Prospect Street, New Haven, Connecticut 06520, United States
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6
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Leavitt CM, Moradi CP, Stanton JF, Douberly GE. Communication: Helium nanodroplet isolation and rovibrational spectroscopy of hydroxymethylene. J Chem Phys 2014; 140:171102. [DOI: 10.1063/1.4874850] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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7
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Abstract
The use of mass spectrometry in macromolecular analysis is an incredibly important technique and has allowed efficient identification of secondary and tertiary protein structures. Over 20 years ago, Chemistry Nobelist John Fenn and co-workers revolutionized mass spectrometry by developing ways to non-destructively extract large molecules directly from solution into the gas phase. This advance, in turn, enabled rapid sequencing of biopolymers through tandem mass spectrometry at the heart of the burgeoning field of proteomics. In this Account, we discuss how cryogenic cooling, mass selection, and reactive processing together provide a powerful way to characterize ion structures as well as rationally synthesize labile reaction intermediates. This is accomplished by first cooling the ions close to 10 K and condensing onto them weakly bound, chemically inert small molecules or rare gas atoms. This assembly can then be used as a medium in which to quench reactive encounters by rapid evaporation of the adducts, as well as provide a universal means for acquiring highly resolved vibrational action spectra of the embedded species by photoinduced mass loss. Moreover, the spectroscopic measurements can be obtained with readily available, broadly tunable pulsed infrared lasers because absorption of a single photon is sufficient to induce evaporation. We discuss the implementation of these methods with a new type of hybrid photofragmentation mass spectrometer involving two stages of mass selection with two laser excitation regions interfaced to the cryogenic ion source. We illustrate several capabilities of the cryogenic ion spectrometer by presenting recent applications to peptides, a biomimetic catalyst, a large antibiotic molecule (vancomycin), and reaction intermediates pertinent to the chemistry of the ionosphere. First, we demonstrate how site-specific isotopic substitution can be used to identify bands due to local functional groups in a protonated tripeptide designed to stereoselectively catalyze bromination of biaryl substrates. This procedure directly reveals the particular H-bond donor and acceptor groups that enforce the folded structure of the bare ion as well as provide contact points for noncovalent interaction with substrates. We then show how photochemical hole-burning involving only vibrational excitations can be used in a double-resonance mode to systematically disentangle overlapping spectra that arise when several conformers of a dipeptide are prepared in the ion source. Finally, we highlight our ability to systematically capture reaction intermediates and spectroscopically characterize their structures. Through this method, we can identify the pathway for water-network-mediated, proton-coupled transformation of nitrosonium, NO(+) to HONO, a key reaction controlling the cations present in the ionosphere. Through this work, we reveal the critical role played by water molecules occupying the second solvation shell around the ion, where they stabilize the emergent product ion in a fashion reminiscent of the solvent coordinate responsible for the barrier to charge transfer in solution. Looking to the future, we predict that the capture and characterization of fleeting intermediate complexes in the homogeneous catalytic activation of small molecules like water, alkanes, and CO2 is a likely avenue rich with opportunity.
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Affiliation(s)
- Arron B. Wolk
- Sterling Chemistry Laboratory, Yale University, P. O. Box 208107, New Haven, Connecticut 06520, United States
| | - Christopher M. Leavitt
- Sterling Chemistry Laboratory, Yale University, P. O. Box 208107, New Haven, Connecticut 06520, United States
| | - Etienne Garand
- Department of Chemistry, University of Wisconsin, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Mark A. Johnson
- Sterling Chemistry Laboratory, Yale University, P. O. Box 208107, New Haven, Connecticut 06520, United States
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8
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Leavitt CM, Moradi CP, Acrey BW, Douberly GE. Infrared laser spectroscopy of the helium-solvated allyl and allyl peroxy radicals. J Chem Phys 2013; 139:234301. [DOI: 10.1063/1.4844175] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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9
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Obi EI, Leavitt CM, Raston PL, Moradi CP, Flynn SD, Vaghjiani GL, Boatz JA, Chambreau SD, Douberly GE. Helium Nanodroplet Isolation and Infrared Spectroscopy of the Isolated Ion-Pair 1-Ethyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide. J Phys Chem A 2013; 117:9047-56. [DOI: 10.1021/jp4078322] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Emmanuel I. Obi
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
| | | | - Paul L. Raston
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
| | - Christopher P. Moradi
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
| | - Steven D. Flynn
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
| | | | - Jerry A. Boatz
- Air Force Research Laboratory, Edwards Air
Force Base, California 93524, United States
| | | | - Gary E. Douberly
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602, United States
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10
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Leavitt CM, Wolk AB, Fournier JA, Kamrath MZ, Garand E, Van Stipdonk MJ, Johnson MA. Isomer-Specific IR-IR Double Resonance Spectroscopy of D2-Tagged Protonated Dipeptides Prepared in a Cryogenic Ion Trap. J Phys Chem Lett 2012; 3:1099-105. [PMID: 26288043 DOI: 10.1021/jz3003074] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Isomer-specific vibrational predissociation spectra are reported for the gas-phase GlySarH(+) and SarSarH(+) [Gly = glycine; Sar = sarcosine] ions prepared by electrospray ionization and tagged with weakly bound D2 adducts using a cryogenic ion trap. The contributions of individual isomers to the overlapping vibrational band patterns are completely isolated using a pump-probe photochemical hole-burning scheme involving two tunable infrared lasers and two stages of mass selection (hence IR(2)MS(2)). These patterns are then assigned by comparison with harmonic (MP2/6-311+G(d,p)) spectra for various possible conformers. Both systems occur in two conformations based on cis and trans configurations with respect to the amide bond. In addition to the usual single intramolecular hydrogen bond motif between the protonated amine and the nearby amide oxygen atom, cis-SarSarH(+) adopts a previous unreported conformation in which both amino NH's act as H-bond donors. The correlated red shifts in the NH donor and C═O acceptor components of the NH···O═C linkage to the acid group are unambiguously assigned in the double H-bonded conformer.
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Affiliation(s)
- Christopher M Leavitt
- †Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Arron B Wolk
- †Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Joseph A Fournier
- †Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Michael Z Kamrath
- †Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Etienne Garand
- †Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Michael J Van Stipdonk
- ‡Department of Chemistry, Lawrence University, 711 East Boldt Way, Appleton, Wisconsin 54911, United States
| | - Mark A Johnson
- †Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
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11
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Gerardi HK, DeBlase AF, Leavitt CM, Su X, Jordan KD, McCoy AB, Johnson MA. Structural characterization of electron-induced proton transfer in the formic acid dimer anion, (HCOOH)2−, with vibrational and photoelectron spectroscopies. J Chem Phys 2012; 136:134318. [DOI: 10.1063/1.3693271] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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12
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Garand E, Kamrath MZ, Jordan PA, Wolk AB, Leavitt CM, McCoy AB, Miller SJ, Johnson MA. Determination of noncovalent docking by infrared spectroscopy of cold gas-phase complexes. Science 2012; 335:694-8. [PMID: 22267579 PMCID: PMC4038764 DOI: 10.1126/science.1214948] [Citation(s) in RCA: 113] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Multidentate, noncovalent interactions between small molecules and biopolymer fragments are central to processes ranging from drug action to selective catalysis. We present a versatile and sensitive spectroscopic probe of functional groups engaged in hydrogen bonding in such contexts. This involves measurement of the frequency changes in specific covalent bonds upon complex formation, information drawn from otherwise transient complexes that have been extracted from solution and conformationally frozen near 10 kelvin in gas-phase clusters. Resonances closely associated with individual oscillators are easily identified through site-specific isotopic labeling, as demonstrated by application of the method to an archetypal system involving a synthetic tripeptide known to bind biaryl substrates through tailored hydrogen bonding to catalyze their asymmetric bromination. With such data, calculations readily converge on the plausible operative structures in otherwise computationally prohibitive, high-dimensionality landscapes.
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Affiliation(s)
- Etienne Garand
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520
| | - Michael Z. Kamrath
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520
| | - Peter A. Jordan
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520
| | - Arron B. Wolk
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520
| | | | - Anne B. McCoy
- Department of Chemistry, The Ohio State University, Columbus, OH 43210
| | - Scott J. Miller
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520
| | - Mark A. Johnson
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520
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13
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McCoy AB, Guasco TL, Leavitt CM, Olesen SG, Johnson MA. Vibrational manifestations of strong non-Condon effects in the H3O+·X3 (X = Ar, N2, CH4, H2O) complexes: A possible explanation for the intensity in the “association band” in the vibrational spectrum of water. Phys Chem Chem Phys 2012; 14:7205-14. [DOI: 10.1039/c2cp24110b] [Citation(s) in RCA: 67] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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14
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Leavitt CM, Wolk AB, Kamrath MZ, Garand E, Van Stipdonk MJ, Johnson MA. Characterizing the intramolecular H-bond and secondary structure in methylated GlyGlyH+ with H2 predissociation spectroscopy. J Am Soc Mass Spectrom 2011; 22:1941-1952. [PMID: 21952771 DOI: 10.1007/s13361-011-0228-3] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2011] [Revised: 08/03/2011] [Accepted: 08/03/2011] [Indexed: 05/31/2023]
Abstract
We report vibrational predissociation spectra of the four protonated dipeptides derived from glycine and sarcosine, GlyGlyH(+)•(H(2))(1,2), GlySarH(+)•(D(2))(2), SarGlyH(+)•(H(2))(2), and SarSarH(+)•(D(2))(2), generated in a cryogenic ion trap. Sharp bands were recovered by monitoring photoevaporation of the weakly bound H(2) (D(2)) molecules in a linear action regime throughout the 700-4200 cm(-1) range using a table-top laser system. The spectral patterns were analyzed in the context of the low energy structures obtained from electronic structure calculations. These results indicate that all four species are protonated on the N-terminus, and feature an intramolecular H-bond involving the amino group. The large blue-shift in the H-bonded N-H fundamental upon incorporation of a methyl group at the N-terminus indicates that this modification significantly lowers the strength of the intramolecular H-bond. Methylation at the amide nitrogen, on the other hand, induces a significant rotation (~110°) about the peptide backbone.
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Affiliation(s)
- Christopher M Leavitt
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520, USA
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15
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Scerba MT, Leavitt CM, Diener ME, DeBlase AF, Guasco TL, Siegler MA, Bair N, Johnson MA, Lectka T. NH+–F Hydrogen Bonding in a Fluorinated “Proton Sponge” Derivative: Integration of Solution, Solid-State, Gas-Phase, and Computational Studies. J Org Chem 2011; 76:7975-84. [DOI: 10.1021/jo2015328] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Michael T. Scerba
- Department of Chemistry, New Chemistry Building, Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Christopher M. Leavitt
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Matthew E. Diener
- Department of Chemistry, New Chemistry Building, Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Andrew F. DeBlase
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Timothy L. Guasco
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Maxime A. Siegler
- Department of Chemistry, New Chemistry Building, Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Nathaniel Bair
- Department of Chemistry, New Chemistry Building, Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Mark A. Johnson
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520, United States
| | - Thomas Lectka
- Department of Chemistry, New Chemistry Building, Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
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16
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Kamrath MZ, Garand E, Jordan PA, Leavitt CM, Wolk AB, Van Stipdonk MJ, Miller SJ, Johnson MA. Vibrational characterization of simple peptides using cryogenic infrared photodissociation of H2-tagged, mass-selected ions. J Am Chem Soc 2011; 133:6440-8. [PMID: 21449591 PMCID: PMC3099397 DOI: 10.1021/ja200849g] [Citation(s) in RCA: 121] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
We present infrared photodissociation spectra of two protonated peptides that are cooled in a ~10 K quadrupole ion trap and "tagged" with weakly bound H(2) molecules. Spectra are recorded over the range of 600-4300 cm(-1) using a table-top laser source, and are shown to result from one-photon absorption events. This arrangement is demonstrated to recover sharp (Δν ~6 cm(-1)) transitions throughout the fingerprint region, despite the very high density of vibrational states in this energy range. The fundamentals associated with all of the signature N-H and C=O stretching bands are completely resolved. To address the site-specificity of the C=O stretches near 1800 cm(-1), we incorporated one (13)C into the tripeptide. The labeling affects only one line in the complex spectrum, indicating that each C=O oscillator contributes a single distinct band, effectively "reporting" its local chemical environment. For both peptides, analysis of the resulting band patterns indicates that only one isomeric form is generated upon cooling the ions initially at room temperature into the H(2) tagging regime.
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Affiliation(s)
- Michael Z. Kamrath
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
| | - Etienne Garand
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
| | - Peter A. Jordan
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
| | - Christopher M. Leavitt
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
| | - Arron B. Wolk
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
| | | | - Scott J. Miller
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
| | - Mark A. Johnson
- Sterling Chemistry Laboratory, Yale University, P.O. Box 208107, New Haven, CT 06520 USA
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17
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Dain RP, Leavitt CM, Oomens J, Steill JD, Groenewold GS, Van Stipdonk MJ. Infrared multiple photon dissociation spectroscopy of sodium and potassium chlorate anions. Rapid Commun Mass Spectrom 2010; 24:232-238. [PMID: 20014046 DOI: 10.1002/rcm.4379] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The structures of gas-phase, metal chlorate anions with the formula [M(ClO(3))(2)](-), M = Na and K, were determined using tandem mass spectrometry and infrared multiple photon dissociation (IRMPD) spectroscopy. Structural assignments for both anions are based on comparisons of the experimental vibrational spectra for the two species with those predicted by density functional theory (DFT) and involve conformations that feature either bidentate or tridentate coordination of the cation by chlorate. Our results strongly suggest that a structure in which both chlorate anions are bidentate ligands is preferred for [Na(ClO(3))(2)](-). However, for [K(ClO(3))(2)](-) the best agreement between experimental and theoretical spectra is obtained from a composite of predicted spectra for which the chlorate anions are either both bidentate or both tridentate ligands. In general, we find that the overall accuracy of DFT calculations for prediction of IR spectra is dependent on both functional and basis set, with best agreement achieved using frequencies generated at the B3LYP/6-311+g(3df) level of theory.
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Affiliation(s)
- Ryan P Dain
- Department of Chemistry, Wichita State University, Wichita, KS 67260-0051, USA
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18
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Molesworth S, Leavitt CM, Groenewold GS, Oomens J, Steill JD, van Stipdonk M. Spectroscopic evidence for mobilization of amide position protons during CID of model peptide ions. J Am Soc Mass Spectrom 2009; 20:1841-1845. [PMID: 19648027 DOI: 10.1016/j.jasms.2009.06.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2009] [Revised: 06/10/2009] [Accepted: 06/10/2009] [Indexed: 05/28/2023]
Abstract
Infrared multiple photon dissociation (IRMPD) spectroscopy was used to study formation of b2+ from nicotinyl-glycine-glycine-methyl ester (NicGGOMe). IRMPD shows that NicGGOMe is protonated at the pyridine ring of the nicotinyl group, and more importantly, that b2+ from NicGGOMe is not protonated at the oxazolone ring, as would be expected if the species were generated on the conventional bn+/yn+ oxazolone pathway, but at the pyridine ring instead. IRMPD data support a hypothesis that formation of b2+ from NicGGOMe involves mobilization and transfer of an amide position proton during the fragmentation reaction.
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Affiliation(s)
- Samuel Molesworth
- Department of Chemistry, Wichita State University, Wichita, Kansas 67260-0051, USA
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Groenewold GS, Leavitt CM, Dain RP, Oomens J, Steill JD, van Stipdonk MJ. Infrared spectrum of potassium-cationized triethylphosphate generated using tandem mass spectrometry and infrared multiple photon dissociation. Rapid Commun Mass Spectrom 2009; 23:2706-2710. [PMID: 19630032 DOI: 10.1002/rcm.4162] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Tandem mass spectrometry and wavelength-selective infrared photodissociation were used to generate an infrared spectrum of gas-phase triethylphosphate cationized by attachment of K(+). Prominent absorptions were observed in the region of 900 to 1300 cm(-1) that are characteristic of phosphate P=O and P-O-R stretches. The relative positions and intensities of the IR absorptions were reproduced well by density functional theory (DFT) calculations performed using the B3LYP functional and the 6-31+G(d), 6-311+G(d,p) and 6-311++G(3df,2pd) basis sets. Because of good correspondence between experiment and theory for the cation, DFT was then used to generate a theoretical spectrum for neutral triethylphosphate, which in turn accurately reproduces the IR spectrum of the neat liquid when solvent effects are included in the calculations.
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Aubriet F, Gaumet JJ, de Jong WA, Groenewold GS, Gianotto AK, McIlwain ME, Van Stipdonk MJ, Leavitt CM. Cerium Oxyhydroxide Clusters: Formation, Structure, and Reactivity. J Phys Chem A 2009; 113:6239-52. [DOI: 10.1021/jp9015432] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
| | | | - Wibe A. de Jong
- Pacific Northwest National Laboratory, Richland, Washington 99352
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Leavitt CM, Oomens J, Dain RP, Steill J, Groenewold GS, Van Stipdonk MJ. IRMPD spectroscopy of anionic group II metal nitrate cluster ions. J Am Soc Mass Spectrom 2009; 20:772-782. [PMID: 19201616 DOI: 10.1016/j.jasms.2008.12.023] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2008] [Revised: 12/10/2008] [Accepted: 12/18/2008] [Indexed: 05/27/2023]
Abstract
Anionic group II metal nitrate clusters of the formula [M(2)(NO(3))(5)](-), where M(2) = Mg(2), MgCa, Ca(2), and Sr(2), are investigated by infrared multiple photon dissociation (IRMPD) spectroscopy to obtain vibrational spectra in the mid-IR region. The IR spectra are dominated by the symmetric and the antisymmetric nitrate stretches, with the latter split into high and low-frequency components due to the distortion of nitrate anion symmetry by interactions with the cation. Density functional theory (DFT) is used to predict geometries and vibrational spectra for comparison to the experimental spectra. Calculations yield two stable isomers: the first one contains two terminal nitrate anions on each cation and a single bridging nitrate ("mono-bridging"), while the second structure features a single terminal nitrate on each cation with three bridging nitrate ligands ("tri-bridging"). The tri-bridging isomer is calculated to be lower in energy than the mono-bridging one for all species. Theoretical spectra of the tri-bridging structure provide a better qualitative match to the experimental infrared spectra of [Mg(2)(NO(3))(5)](-) and [MgCa(NO(3))(5)](-). However, the profile of the low-frequency nu(3) band for the Mg(2) complex suggests a third possible isomer not predicted by theory. The IRMPD spectra of the Ca(2) and Sr(2) complexes are better reconciled by a weighted summation of the spectra of both isomers suggesting that a mixture of structures is present.
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Leavitt CM, Bryantsev VS, Jong WAD, Diallo MS, Goddard III WA, Groenewold GS, Stipdonk MJV. Addition of H2O and O2 to Acetone and Dimethylsulfoxide Ligated Uranyl(V) Dioxocations. J Phys Chem A 2009; 113:2350-8. [DOI: 10.1021/jp807651c] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Christopher M. Leavitt
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
| | - Vyacheslav S. Bryantsev
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
| | - Wibe A. de Jong
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
| | - Mamadou S. Diallo
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
| | - William A. Goddard III
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
| | - Gary S. Groenewold
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
| | - Michael J. Van Stipdonk
- Department of Chemistry, Wichita State University, Wichita, KS, Materials and Process Simulation Centre, Beckman Institute 139-74, California Institute of Technology, Pasadena, CA, William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, and Interfacial Chemistry Group, Idaho National Laboratory, Idaho Falls, ID
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Leavitt CM, Gresham GL, Benson MT, Gaumet JJ, Peterman DR, Klaehn JR, Moser M, Aubriet F, Van Stipdonk MJ, Groenewold GS. Investigations of Acidity and Nucleophilicity of Diphenyldithiophosphinate Ligands Using Theory and Gas-Phase Dissociation Reactions. Inorg Chem 2008; 47:3056-64. [DOI: 10.1021/ic7020897] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Christopher M. Leavitt
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Garold L. Gresham
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Michael T. Benson
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Jean-Jacques Gaumet
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Dean R. Peterman
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - John R. Klaehn
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Megan Moser
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Frederic Aubriet
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Michael J. Van Stipdonk
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
| | - Gary S. Groenewold
- Wichita State University, Wichita, Kansas, Idaho National Laboratory, Idaho Falls, Idaho, and Laboratoire de Spectrometrie de Masse et de Chimie Laser, Université Paul Verlaine–Metz, Metz, France
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Van Stipdonk MJ, Kerstetter DR, Leavitt CM, Groenewold GS, Steill J, Oomens J. Spectroscopic investigation of H atom transfer in a gas-phase dissociation reaction: McLafferty rearrangement of model gas-phase peptide ions. Phys Chem Chem Phys 2008; 10:3209-21. [DOI: 10.1039/b802314j] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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