1
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Janesko BG. Core-Projected Hybrids Fix Systematic Errors in Time-Dependent Density Functional Theory Predicted Core-Electron Excitations. J Chem Theory Comput 2023. [PMID: 37437304 DOI: 10.1021/acs.jctc.3c00312] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/14/2023]
Abstract
Linear response time-dependent density functional theory (TDDFT) is widely applied to valence, Rydberg, and charge-transfer excitations but, in its current form, makes large errors for core-electron excitations. This work demonstrates that the admixture of nonlocal exact exchange in atomic core regions significantly improves TDDFT-predicted core excitations. Exact exchange admixture is accomplished using projected hybrid density functional theory [ J. Chem. Theory Comput. 2023, 19, 837-847]. Scalar relativistic TDDFT calculations using core-projected B3LYP accurately model core excitations of second-period elements C-F and third-period elements Si-Cl, without sacrificing performance for the relative shifts of core excitation energies. Predicted K-edge X-ray near absorption edge structure (XANES) of a series of sulfur standards highlight the value of this approach. Core-projected hybrids appear to be a practical solution to TDDFT's limitations for core excitations, in the way that long-range-corrected hybrids are a practical solution to TDDFT's limitations for Rydberg and charge-transfer excitations.
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Affiliation(s)
- Benjamin G Janesko
- Department of Chemistry & Biochemistry, Texas Christian University, Fort Worth, Texas 76129, United States
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2
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Pushie MJ, Sylvain NJ, Hou H, Hackett MJ, Kelly ME, Webb SM. X-ray fluorescence microscopy methods for biological tissues. Metallomics 2022; 14:mfac032. [PMID: 35512669 PMCID: PMC9226457 DOI: 10.1093/mtomcs/mfac032] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2022] [Accepted: 05/05/2022] [Indexed: 11/14/2022]
Abstract
Synchrotron-based X-ray fluorescence microscopy is a flexible tool for identifying the distribution of trace elements in biological specimens across a broad range of sample sizes. The technique is not particularly limited by sample type and can be performed on ancient fossils, fixed or fresh tissue specimens, and in some cases even live tissue and live cells can be studied. The technique can also be expanded to provide chemical specificity to elemental maps, either at individual points of interest in a map or across a large field of view. While virtually any sample type can be characterized with X-ray fluorescence microscopy, common biological sample preparation methods (often borrowed from other fields, such as histology) can lead to unforeseen pitfalls, resulting in altered element distributions and concentrations. A general overview of sample preparation and data-acquisition methods for X-ray fluorescence microscopy is presented, along with outlining the general approach for applying this technique to a new field of investigation for prospective new users. Considerations for improving data acquisition and quality are reviewed as well as the effects of sample preparation, with a particular focus on soft tissues. The effects of common sample pretreatment steps as well as the underlying factors that govern which, and to what extent, specific elements are likely to be altered are reviewed along with common artifacts observed in X-ray fluorescence microscopy data.
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Affiliation(s)
- M Jake Pushie
- Department of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, Saskatoon, Saskatchewan, S7N 5E5 Canada
| | - Nicole J Sylvain
- Department of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, Saskatoon, Saskatchewan, S7N 5E5 Canada
- Clinical Trial Support Unit, College of Medicine, University of Saskatchewan, Saskatoon, Saskatchewan, S7N 0W8 Canada
| | - Huishu Hou
- Department of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, Saskatoon, Saskatchewan, S7N 5E5 Canada
| | - Mark J Hackett
- Curtin Health Innovation Research Institute, Curtin University, Perth, Western Austrailia 6102, Australia
- School of Molecular and Life Sciences, Curtin University, Perth, Western Austrailia 6845, Australia
| | - Michael E Kelly
- Department of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, Saskatoon, Saskatchewan, S7N 5E5 Canada
| | - Samuel M Webb
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
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3
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Wen X, Wang S, Liu R, Duan R, Hu S, Jiao T, Zhang L, Liu M. Selenocystine and Photo-Irradiation Directed Growth of Helically Grooved Gold Nanoarrows. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2022; 18:e2104301. [PMID: 34825484 DOI: 10.1002/smll.202104301] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Revised: 09/28/2021] [Indexed: 06/13/2023]
Abstract
The fabrication of discrete nanostructures with both plasmonic circular dichroism (PCD) and chiral features is still a challenge. Here, gold nanoarrows (GNAs) with both chiroptical responses and chiral morphologies are achieved by using L-selenocystine (L-SeCys2 ) as a chiral inducer. While L-SeCys2 generates GNAs with a weak PCD signal, the irradiated L-SeCys2 (irr-L-SeCys2 ) leads to GNAs with featured helical grooves (HeliGNAs) accompanying with a strong PCD signal. It is revealed that when L-SeCys2 is photo-irradiated, the emergence of selenyl radicals plays an important role in the formation of HeliGNAs and enhancement of the chiroptical signal. In comparison with L-SeCys2 and the other kinds of sulfur-containing amino acids, the formation mechanism of helical grooves on the surface of GNAs is proposed. Both HeliGNAs and GNAs are used to discriminate amino acids by utilizing surface enhanced Raman scattering (SERS) effect. In the presence of either GNAs or HeliGNAs as the substrate, Fmoc-L-Phe shows more significant SERS than Fmoc-D-Phe. This study may advance the design of discrete plasmonic nanomaterials with both chiral morphology and potential applications in discrimination of chiral molecules.
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Affiliation(s)
- Xin Wen
- Hebei Key Laboratory of Applied Chemistry, School of Environmental and Chemical Engineering, Yanshan University, Qinhuangdao, 066004, P. R. China
- CAS Key Laboratory of Colloid Interface and Chemical Thermodynamics Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Song Wang
- CAS Key Laboratory of Colloid Interface and Chemical Thermodynamics Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Rulin Liu
- Shenzhen Institute of Artificial Intelligence and Robotics for Society (AIRS), Shenzhen, 518172, P. R. China
| | - Ran Duan
- Key Laboratory of Photochemistry Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Song Hu
- CAS Key Laboratory of Colloid Interface and Chemical Thermodynamics Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Tifeng Jiao
- Hebei Key Laboratory of Applied Chemistry, School of Environmental and Chemical Engineering, Yanshan University, Qinhuangdao, 066004, P. R. China
| | - Li Zhang
- CAS Key Laboratory of Colloid Interface and Chemical Thermodynamics Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
| | - Minghua Liu
- CAS Key Laboratory of Colloid Interface and Chemical Thermodynamics Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, P. R. China
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4
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Liu Z, Dai X, Xu Q, Sun X, Liu Y. Fluorescence Sensing of Glutathione Thiyl Radical by
BODIPY‐Modified β‐Cyclodextrin. CHINESE J CHEM 2021. [DOI: 10.1002/cjoc.202100662] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Zhixue Liu
- College of Chemistry, State Key Laboratory of Elemento‐Organic Chemistry, Nankai University Tianjin 300071 China
| | - Xianyin Dai
- College of Chemistry, State Key Laboratory of Elemento‐Organic Chemistry, Nankai University Tianjin 300071 China
| | - Qiaoyan Xu
- College of Chemistry, State Key Laboratory of Elemento‐Organic Chemistry, Nankai University Tianjin 300071 China
| | - Xiaohan Sun
- College of Chemistry, State Key Laboratory of Elemento‐Organic Chemistry, Nankai University Tianjin 300071 China
| | - Yu Liu
- College of Chemistry, State Key Laboratory of Elemento‐Organic Chemistry, Nankai University Tianjin 300071 China
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5
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Wei R, Hu J, Chen X, Gong Y. Vanadium, niobium and tantalum complexes with terminal sulfur radical ligands. Dalton Trans 2021; 50:11300-11306. [PMID: 34342320 DOI: 10.1039/d1dt01956b] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Sulfur radicals terminally bound to the metal center can be considered as the one-electron reduction products of complexes with terminal sulfido ligands which serve as the reactive sites in enzymes and precursors. However, there is limited information regarding this kind of metal stabilized sulfur radical, which contrasts the more commonly known metal stabilized thiyl radical. In this work, we report the preparation of vanadium, niobium and tantalum radical complexes in the form of M(O)(S)F2 from the reactions of laser-ablated metal atoms and SOF2 in cryogenic matrixes. Combined with the results from infrared spectroscopy and density functional theory calculations, the sulfur ligand in M(O)(S)F2 is characterized to be a terminally bound radical with the unpaired electron located on the sulfur 3p orbital. Besides this radical complex, calculations also predict the existence of MF2(η2-SO) with a side-on SO ligand, but this less stable isomer is not observed as a result of high exothermicity along with its formation from metal atoms and SOF2 that is large enough to overcome the energy barrier towards the occurrence of M(O)(S)F2.
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Affiliation(s)
- Rui Wei
- Department of Radiochemistry, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China.
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6
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Euceda N, Jahnke J, Espinal A, Louis MF, Bashkin E, Roccanova P, Espaillat A, Fuentes GV, Nieto F, Gao R. Thioguanine restoration through type I photosensitization-superoxide oxidation-glutathione reduction cycles. Phys Chem Chem Phys 2021; 23:5069-5073. [PMID: 33655288 DOI: 10.1039/d1cp00101a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
UVA-induced deleterious effect of thiopurine prodrugs including azathioprine, 6-mercaptopurine and 6-thioguanine (6-TG) increases the risk of cancer development due to the incorporation of 6-TG in patients' DNA. The catalytic mechanism by which thiobases act as a sustained oxidant producer has yet to be explored, especially through the Type I electron transfer pathway that produces superoxide radicals (O2˙-). Under Fenton-like conditions O2˙- radicals convert to extremely reactive hydroxyl radicals (˙OH), thus carrying even higher risk of biological damage than that induced by the well-studied type II reaction. By monitoring 6-TG/UVA-induced photochemistry in mass spectra and superoxide radicals (O2˙-) via nitro blue tetrazolium (NBT) reduction, this work provides two new findings: (1) in the presence of reduced glutathione (GSH), the production of O2˙-via the type I reaction is enhanced 10-fold. 6-TG thiyl radicals are identified as the primary intermediate formed in the reaction of 6-TG with O2˙-. The restoration of 6-TG and concurrent generation of O2˙- occur via a 3-step-cycle: 6-TG type I photosensitization, O2˙- oxidation and GSH reduction. (2) In the absence of GSH, 6-TG thiyl radicals undergo oxygen addition and sulfur dioxide removal to form carbon radicals (C6) which further convert to thioether by reacting with 6-TG molecules. These findings help explain not only thiol-regulation in a biological system but chemoprevention of cancer.
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Affiliation(s)
- Nelson Euceda
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - Joyce Jahnke
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - Aileen Espinal
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - Monique F Louis
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - Edan Bashkin
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - Patricia Roccanova
- Biological Sciences Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA
| | - Abraham Espaillat
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - German V Fuentes
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
| | - Fernando Nieto
- Biological Sciences Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA
| | - Ruomei Gao
- Chemistry and Physics Department, SUNY College at Old Westbury, Old Westbury, NY 11568, USA.
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7
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Martins M, Reinwardt S, Schunck JO, Schwarz J, Baev K, Müller A, Buhr T, Perry-Sassmannshausen A, Klumpp S, Schippers S. Disentangling the Photodissociation Dynamics of the HF + Molecular Radical via Kinetic-Energy-Release-Resolved F 1s Core Excitation and Ionization. J Phys Chem Lett 2021; 12:1390-1395. [PMID: 33508188 DOI: 10.1021/acs.jpclett.0c03356] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The F 1s core level photoionization of the ionic molecular radical HF+ has been studied using the photon-ion merged-beams technique at a synchrotron radiation source. Upon analyzing kinetic energy release (KER) dependent photoion yield spectra, complex ultrafast dissociation dynamics of the F 1s core hole excited σ* state can be revealed. By means of configuration-interaction electronic structure calculations of the excited molecular potential energy curves, this complex process can be attributed to a spin-dependent dissociation of the excited σ* biradical state.
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Affiliation(s)
- M Martins
- Institut für Experimentalphysik, Universität Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - S Reinwardt
- Institut für Experimentalphysik, Universität Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - J O Schunck
- Institut für Experimentalphysik, Universität Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - J Schwarz
- Institut für Experimentalphysik, Universität Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - K Baev
- Institut für Experimentalphysik, Universität Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - A Müller
- Institut für Atom- und Molekülphysik, Justus-Liebig-Universität Gießen, Leihgesterner Weg 217, 35392 Giessen, Germany
| | - T Buhr
- I. Physikalisches Institut, Justus-Liebig-Universität Gießen, Heinrich-Buff-Ring 16, 35392 Giessen, Germany
| | - A Perry-Sassmannshausen
- I. Physikalisches Institut, Justus-Liebig-Universität Gießen, Heinrich-Buff-Ring 16, 35392 Giessen, Germany
| | - S Klumpp
- Deutsches Elektronen-Synchrotron (DESY), Notkestrasse 85, 22607 Hamburg, Germany
| | - S Schippers
- I. Physikalisches Institut, Justus-Liebig-Universität Gießen, Heinrich-Buff-Ring 16, 35392 Giessen, Germany
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8
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Sahharova LT, Gordeev EG, Eremin DB, Ananikov VP. Pd-Catalyzed Synthesis of Densely Functionalized Cyclopropyl Vinyl Sulfides Reveals the Origin of High Selectivity in a Fundamental Alkyne Insertion Step. ACS Catal 2020. [DOI: 10.1021/acscatal.0c02053] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Liliya T. Sahharova
- Zelinsky institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow 119991, Russia
| | - Evgeniy G. Gordeev
- Zelinsky institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow 119991, Russia
| | - Dmitry B. Eremin
- Zelinsky institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow 119991, Russia
- The Bridge@USC, University of Southern California, 1002 Childs Way, Los Angeles, California 90089-3502, United States
| | - Valentine P. Ananikov
- Zelinsky institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow 119991, Russia
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9
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George GN, Pickering IJ, Cotelesage JJH, Vogt LI, Dolgova NV, Regnier N, Sokaras D, Kroll T, Sneeden EY, Hackett MJ, Goto K, Block E. Visualizing sulfur with X-rays: From molecules to tissues. PHOSPHORUS SULFUR 2019. [DOI: 10.1080/10426507.2019.1602618] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Graham N. George
- Department of Geological Sciences, University of Saskatchewan, Saskatoon, Canada
- Department of Chemistry, University of Saskatchewan, Saskatoon, Canada
| | - Ingrid J. Pickering
- Department of Geological Sciences, University of Saskatchewan, Saskatoon, Canada
- Department of Chemistry, University of Saskatchewan, Saskatoon, Canada
| | | | - Linda I. Vogt
- Department of Geological Sciences, University of Saskatchewan, Saskatoon, Canada
| | - Natalia V. Dolgova
- Department of Geological Sciences, University of Saskatchewan, Saskatoon, Canada
| | - Nathan Regnier
- Department of Chemistry, University of Saskatchewan, Saskatoon, Canada
| | | | - Thomas Kroll
- Stanford Synchrotron Radiation Lightsource, Menlo Park, California, USA
| | - Eileen Y. Sneeden
- Stanford Synchrotron Radiation Lightsource, Menlo Park, California, USA
| | - Mark J. Hackett
- Department of Geological Sciences, University of Saskatchewan, Saskatoon, Canada
| | - Kei Goto
- Department of Chemistry, Tokyo Institute of Technology, Tokyo, Japan
| | - Eric Block
- Department of Chemistry, University at Albany – State University of New York, Albany, New York, USA
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10
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Frank P, Sarangi R, Hedman B, Hodgson KO. Synchrotron X-radiolysis of l-cysteine at the sulfur K-edge: Sulfurous products, experimental surprises, and dioxygen as an oxidoreductant. J Chem Phys 2019; 150:105101. [PMID: 30876351 PMCID: PMC7791807 DOI: 10.1063/1.5079419] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2018] [Accepted: 02/12/2019] [Indexed: 11/14/2022] Open
Abstract
In situ inventory of sulfurous products from the sulfur K-edge synchrotron X-radiolysis of l-cysteine in solid-phase and anaerobic (pH 5) and air-saturated (pH 5, 7, and 9) solutions without and with 40% glycerol is reported. Sequential K-edge X-ray Absorption Spectroscopic (XAS) spectra were acquired. l-cysteine degraded systematically in the X-ray beam. Radiolytic products were inventoried by fits using the XAS spectra of sulfur model compounds. Solid l-cysteine declined to 92% fraction after a single K-edge XAS scan. After six scans, 60% remained, accompanied by 14% cystine, 16% thioether, 5.4% elemental sulfur, and smaller fractions of more highly oxidized products. In air-saturated pH 5 solution, 73% of l-cysteine remained after ten scans, with 2% cystine and 19% elemental sulfur. Oxidation increased with 40% glycerol, yielding 67%, 5%, and 23% fractions, respectively, after ten scans. Higher pH solutions exhibited less radiolytic chemistry. All the reactivity followed first-order kinetics. The anaerobic experiment displayed two reaction phases, with sharp changes in kinetics and radiolytic chemistry. Unexpectedly, the radiolytic oxidation of l-cysteine was increased in anaerobic solution. After ten scans, only 60% of the l-cysteine remained, along with 17% cystine, 22% elemental sulfur, and traces of more highly oxidized products. A new aerobic reaction cycle is hypothesized, wherein dissolved dioxygen captures radiolytic H• or eaq -, enters HO2 •/O2 •-, reductively quenches cysteine thiyl radicals, and cycles back to O2. This cycle is suggested to suppress the radiolytic production of cystine in aerobic solution.
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Affiliation(s)
- Patrick Frank
- Author to whom correspondence should be addressed: . Tel.: 650-723-2479
| | - Ritimukta Sarangi
- Stanford Synchrotron Radiation Lightsource, SLAC, Stanford University, Menlo Park, California 94025, USA
| | - Britt Hedman
- Stanford Synchrotron Radiation Lightsource, SLAC, Stanford University, Menlo Park, California 94025, USA
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11
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Wu Z, Chen C, Liu J, Lu Y, Xu J, Liu X, Cui G, Trabelsi T, Francisco JS, Mardyukov A, Eckhardt AK, Schreiner PR, Zeng X. Caged Nitric Oxide-Thiyl Radical Pairs. J Am Chem Soc 2019; 141:3361-3365. [PMID: 30758958 DOI: 10.1021/jacs.8b12746] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
S-Nitrosothiols (RSNO) are exogenous and endogenous sources of nitric oxide in biological systems due to facile homolytic cleavage of the S-N bonds. By following the photolytic decomposition of prototypical RSNO (R = Me and Et) in Ne, Ar, and N2 matrixes (<10 K), elusive caged radical pairs consisting of nitric oxide (NO•) and thiyl radicals (RS•), bridged by O···S and H···N connections, were identified with IR and UV/vis spectroscopy. Upon red-light irradiation, both caged radical pairs (RS•···•ON) vanish and reform RSNO. According to the calculation at the CASPT2(10,8)/cc-pVDZ level (298.15 K), the dissociation energy of MeS•···•ON amounts to 4.7 kcal mol-1.
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Affiliation(s)
- Zhuang Wu
- College of Chemistry, Chemical Engineering and Materials Science , Soochow University , Suzhou 215123 , China
| | - Changyun Chen
- College of Chemistry, Chemical Engineering and Materials Science , Soochow University , Suzhou 215123 , China
| | - Jie Liu
- College of Chemistry, Chemical Engineering and Materials Science , Soochow University , Suzhou 215123 , China
| | - Yan Lu
- College of Chemistry, Chemical Engineering and Materials Science , Soochow University , Suzhou 215123 , China
| | - Jian Xu
- College of Chemistry, Chemical Engineering and Materials Science , Soochow University , Suzhou 215123 , China
| | - Xiangyang Liu
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry , Beijing Normal University , Beijing 100875 , China
| | - Ganglong Cui
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry , Beijing Normal University , Beijing 100875 , China
| | - Tarek Trabelsi
- Department of Earth and Environmental Science and Department of Chemistry , University of Pennsylvania , Philadelphia , Pennsylvania 19104 , United States
| | - Joseph S Francisco
- Department of Earth and Environmental Science and Department of Chemistry , University of Pennsylvania , Philadelphia , Pennsylvania 19104 , United States
| | - Artur Mardyukov
- Institute of Organic Chemistry , Justus Liebig University , Heinrich-Buff-Ring 17 , 35392 Giessen , Germany
| | - André K Eckhardt
- Institute of Organic Chemistry , Justus Liebig University , Heinrich-Buff-Ring 17 , 35392 Giessen , Germany
| | - Peter R Schreiner
- Institute of Organic Chemistry , Justus Liebig University , Heinrich-Buff-Ring 17 , 35392 Giessen , Germany
| | - Xiaoqing Zeng
- College of Chemistry, Chemical Engineering and Materials Science , Soochow University , Suzhou 215123 , China
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12
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Larsen MAB, Skov AB, Clausen CM, Ruddock J, Stankus B, Weber PM, Sølling TI. Putting the Disulfide Bridge at Risk: How UV-C Radiation Leads to Ultrafast Rupture of the S-S Bond. Chemphyschem 2018; 19:2829-2834. [PMID: 30084532 DOI: 10.1002/cphc.201800610] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Indexed: 11/08/2022]
Abstract
We investigate the ultrafast photoinduced dynamics of the cyclic disulfide 1,2-dithiane upon 200 nm excitation by time-resolved photoelectron spectroscopy and show that the S-S bond breaks on an ultrafast time scale. This stands in stark contrast to excitation at longer wavelengths where the initially excited S1 state evolves as the wavepacket is guided towards a conical intersection with S0 by a torsional motion involving a partially broken bond between the sulfur atoms. This process at lower excitation energy allows for efficient (re-)population of S0 , rendering dithiane intact. At 200 nm, in contrast, the excitation leads to a manifold of higher excited states, Sn , that are primarily of Rydberg character. We are able to follow the gradual transition from the initially excited state to the dissociative receiver state in real time. The Rydberg states are intersected by a repulsive valence state that mediates a transition to the repulsive S2 surface. Therefore, we propose that the resulting diradical will eventually break apart on a longer timescale. The findings imply that upon going from UV-B to UV-C light the structural integrity of the disulfide moiety is compromised and proteins irradiated in this range will not be able to reform the initial tertiary structure, leading to loss of function.
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Affiliation(s)
- Martin A B Larsen
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
| | - Anders B Skov
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
| | - Christian M Clausen
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
| | - Jennifer Ruddock
- Department of Chemistry, Brown University, 324 Brook Street, 02912, Providence, Rhode Island, United States
| | - Brian Stankus
- Department of Chemistry, Brown University, 324 Brook Street, 02912, Providence, Rhode Island, United States
| | - Peter M Weber
- Department of Chemistry, Brown University, 324 Brook Street, 02912, Providence, Rhode Island, United States
| | - Theis I Sølling
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
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13
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Nehzati S, Dolgova NV, Sokaras D, Kroll T, Cotelesage JJH, Pickering IJ, George GN. A Photochemically Generated Selenyl Free Radical Observed by High Energy Resolution Fluorescence Detected X-ray Absorption Spectroscopy. Inorg Chem 2018; 57:10867-10872. [PMID: 30133265 DOI: 10.1021/acs.inorgchem.8b01522] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
Selenium-based selenyl free radicals are chemical entities that may be involved in a range of biochemical processes. We report the first X-ray spectroscopic observation of a selenyl radical species generated photochemically by X-ray irradiation of low-temperature solutions of l-selenocysteine. We have employed high energy resolution fluorescence detected X-ray absorption spectroscopy (HERFD-XAS) and electron paramagnetic resonance (EPR) spectroscopy, coupled with density functional theory calculations, to characterize and understand the species. The HERFD-XAS spectrum of the selenyl radical is distinguished by a uniquely low-energy transition with a peak energy at 12 659.0 eV, which corresponds to a 1s → 4p transition to the singly occupied molecular orbital of the free radical. The EPR spectrum shows the broad features and highly anisotropic g-values that are expected for a selenium free radical species. The availability of spectroscopic probes for selenyl radicals may assist in understanding why life chooses selenium over sulfur in selected biochemical processes.
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Affiliation(s)
- Susan Nehzati
- Molecular and Environmental Sciences Group, Department of Geological Sciences , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5E2 , Canada
| | - Natalia V Dolgova
- Molecular and Environmental Sciences Group, Department of Geological Sciences , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5E2 , Canada
| | - Dimosthenis Sokaras
- Stanford Synchrotron Radiation Lightsource , SLAC National Accelerator Laboratory, Stanford University , Menlo Park , California 94025 , United States
| | - Thomas Kroll
- Stanford Synchrotron Radiation Lightsource , SLAC National Accelerator Laboratory, Stanford University , Menlo Park , California 94025 , United States
| | - Julien J H Cotelesage
- Molecular and Environmental Sciences Group, Department of Geological Sciences , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5E2 , Canada
| | - Ingrid J Pickering
- Molecular and Environmental Sciences Group, Department of Geological Sciences , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5E2 , Canada.,Department of Chemistry , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5C9 , Canada
| | - Graham N George
- Molecular and Environmental Sciences Group, Department of Geological Sciences , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5E2 , Canada.,Department of Chemistry , University of Saskatchewan , Saskatoon , Saskatchewan S7N 5C9 , Canada
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14
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Xu J, Wu Z, Wan H, Deng G, Lu B, Eckhardt AK, Schreiner PR, Trabelsi T, Francisco JS, Zeng X. Phenylsulfinyl Radical: Gas-Phase Generation, Photoisomerization, and Oxidation. J Am Chem Soc 2018; 140:9972-9978. [PMID: 29989805 DOI: 10.1021/jacs.8b05055] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Jian Xu
- College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Zhuang Wu
- College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Huabin Wan
- College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Guohai Deng
- College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Bo Lu
- College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - André K. Eckhardt
- Institute of Organic Chemistry, Justus Liebig University, Heinrich-Buff-Ring 17, 35392 Giessen, Germany
| | - Peter R. Schreiner
- Institute of Organic Chemistry, Justus Liebig University, Heinrich-Buff-Ring 17, 35392 Giessen, Germany
| | - Tarek Trabelsi
- University of Nebraska − Lincoln, Lincoln, Nebraska 68526, United States
| | - Joseph S. Francisco
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Xiaoqing Zeng
- College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
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15
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Nienaber KH, Nehzati S, Cotelesage JJH, Pickering IJ, George GN. X-ray-Induced Photoreduction of Hg(II) in Aqueous Frozen Solution Yields Nearly Monatomic Hg(0). Inorg Chem 2018; 57:8205-8210. [DOI: 10.1021/acs.inorgchem.8b00694] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kurt H. Nienaber
- Molecular and Environmental Sciences Research Group, Department of Geological Sciences, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
| | - Susan Nehzati
- Molecular and Environmental Sciences Research Group, Department of Geological Sciences, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
| | - Julien J. H. Cotelesage
- Molecular and Environmental Sciences Research Group, Department of Geological Sciences, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
| | - Ingrid J. Pickering
- Molecular and Environmental Sciences Research Group, Department of Geological Sciences, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
- Department of Chemistry, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5C9, Canada
| | - Graham N. George
- Molecular and Environmental Sciences Research Group, Department of Geological Sciences, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E2, Canada
- Department of Chemistry, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5C9, Canada
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16
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Ochmann M, Hussain A, von Ahnen I, Cordones AA, Hong K, Lee JH, Ma R, Adamczyk K, Kim TK, Schoenlein RW, Vendrell O, Huse N. UV-Photochemistry of the Disulfide Bond: Evolution of Early Photoproducts from Picosecond X-ray Absorption Spectroscopy at the Sulfur K-Edge. J Am Chem Soc 2018; 140:6554-6561. [PMID: 29771112 DOI: 10.1021/jacs.7b13455] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
We have investigated dimethyl disulfide as the basic moiety for understanding the photochemistry of disulfide bonds, which are central to a broad range of biochemical processes. Picosecond time-resolved X-ray absorption spectroscopy at the sulfur K-edge provides unique element-specific insight into the photochemistry of the disulfide bond initiated by 267 nm femtosecond pulses. We observe a broad but distinct transient induced absorption spectrum which recovers on at least two time scales in the nanosecond range. We employed RASSCF electronic structure calculations to simulate the sulfur-1s transitions of multiple possible chemical species, and identified the methylthiyl and methylperthiyl radicals as the primary reaction products. In addition, we identify disulfur and the CH2S thione as the secondary reaction products of the perthiyl radical that are most likely to explain the observed spectral and kinetic signatures of our experiment. Our study underscores the importance of elemental specificity and the potential of time-resolved X-ray spectroscopy to identify short-lived reaction products in complex reaction schemes that underlie the rich photochemistry of disulfide systems.
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Affiliation(s)
- Miguel Ochmann
- Department of Physics , University of Hamburg and Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science , 22761 Hamburg , Germany
| | - Abid Hussain
- Department of Physics , University of Hamburg and Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science , 22761 Hamburg , Germany
| | - Inga von Ahnen
- Department of Physics , University of Hamburg and Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science , 22761 Hamburg , Germany
| | - Amy A Cordones
- Ultrafast X-ray Science Lab, Chemical Sciences Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Kiryong Hong
- Department of Chemistry and Chemistry Institute of Functional Materials , Pusan National University , Busan 46241 , South Korea
| | - Jae Hyuk Lee
- Ultrafast X-ray Science Lab, Chemical Sciences Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Rory Ma
- Department of Chemistry and Chemistry Institute of Functional Materials , Pusan National University , Busan 46241 , South Korea
| | - Katrin Adamczyk
- Department of Physics , University of Hamburg and Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science , 22761 Hamburg , Germany
| | - Tae Kyu Kim
- Department of Chemistry and Chemistry Institute of Functional Materials , Pusan National University , Busan 46241 , South Korea
| | - Robert W Schoenlein
- Ultrafast X-ray Science Lab, Chemical Sciences Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Oriol Vendrell
- Center for Free-Electron Laser Science , DESY and The Hamburg Centre for Ultrafast Imaging , 22607 Hamburg , Germany
| | - Nils Huse
- Department of Physics , University of Hamburg and Max Planck Institute for the Structure and Dynamics of Matter, Center for Free Electron Laser Science , 22761 Hamburg , Germany
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17
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Wu Z, Xu J, Deng G, Chu X, Sokolenko L, Trabelsi T, Francisco JS, Eckhardt AK, Schreiner PR, Zeng X. The Trifluoromethyl Sulfinyl and Oxathiyl Radicals. Chemistry 2017; 24:1505-1508. [DOI: 10.1002/chem.201705142] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Indexed: 11/07/2022]
Affiliation(s)
- Zhuang Wu
- College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 P.R. China
| | - Jian Xu
- College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 P.R. China
| | - Guohai Deng
- College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 P.R. China
| | - Xianxu Chu
- College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 P.R. China
| | - Liubov Sokolenko
- Organofluorine Chemistry Department, Institute of Organic Chemistry; National Academy of Sciences of Ukraine; Kiev-94 02660 Ukraine
| | - Tarek Trabelsi
- University of Nebraska-Lincoln; Lincoln Nebraska 68526 USA
| | - Joseph S. Francisco
- Department of Chemistry; Purdue University; West Lafayette Indiana 47907 USA
| | - André K. Eckhardt
- Institute of Organic Chemistry; Justus-Liebig University; Heinrich-Buff-Ring 17 35392 Giessen Germany
| | - Peter R. Schreiner
- Institute of Organic Chemistry; Justus-Liebig University; Heinrich-Buff-Ring 17 35392 Giessen Germany
| | - Xiaoqing Zeng
- College of Chemistry, Chemical Engineering and Materials Science; Soochow University; Suzhou 215123 P.R. China
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