XAS Applications. James E. Penner-Hahn Department of Chemistry & Biophysics Program The University of Michigan. XAS Applications 1
|
|
- Erick Blaze Warner
- 6 years ago
- Views:
Transcription
1 XAS Applications James E. Penner-Hahn Department of Chemistry & Biophysics Program The University of Michigan XAS Applications 1
2 Characterization of unknown protein Comparison with crystal structure Determination of solution structure When crystal structures are not enough Spatial localization XAS Applications 2
3 Biological Zn sites Structural (Cys)S (Cys)S Zn S(Cys) S(Cys) Storage S(Cys) (Cys)S Zn (Cys)S S(Cys) Zn XAS Applications 3 Zn e.g., Auld, Biometals, 2001
4 A case study in data under-determination Clark-Baldwin, et al. "The limitations of X-ray absorption spectroscopy for determining the structure of zinc sites in proteins. When is a tetrathiolate not a tetrathiolate?" J. Am. Chem. Soc. 1998, 120,
5 L 1 L 2 SR Zn SR Zn EXAFS is remarkably insensitive to changes in ligation. EXAFS k 3 FT Magnitude ZnS ZnS N ZnS N k (Å -1 ) ZnS 4 20 ZnS N R + (Å) ZnS 2 N 2
6 XANES spectra are sensitive to ligation but show greater variation between different compounds than with changes in ligation. Normalized Absorption (cm 2 /g) Normalized Absorption (cm 2 /g) Peptide ZnS 4 ZnS N 3 ZnS N Energy (ev) Inorganic ZnS 4 ZnS N 3 ZnS N Energy (ev)
7 Zn-S and Zn-N EXAFS signals are approximately out of phase k 3 EXAFS Zn-S Zn-N k (A -1 )
8 The observed EXAFS for mixed S/N sites is dominated by Zn-S scattering 5 Zn-S Zn-N ZnS 2 N 2 k 3 EXAFS k (A -1 )
9 One solution is to measure data over wide k range (ZnS 2 N 2 inorganic) FT Magnitude k=2-11 Å k=2-12 Å k=2-13 Å k=2-14 Å k=2-15 Å k=2-16 Å R + (Å) Note R ~ 0.25 /2 k = 0.25 Å k min ~ 6.3
10 High resolution EXAFS is required to reliably distinguish Zn-S from Zn-N 5 Zn-S Zn-N ZnS 2 N 2 k 3 EXAFS k (A -1 )
11 and even with high resolution data, extremely high signal/noise ratios are required to detect Zn-N in the presence of Zn-S 5 Zn-S Zn-N ZnS 2 N 2 k 3 EXAFS k (A -1 )
12 Homocysteine Homocysteine + Me-X = Methionine + HX E. coli has two methionine synthases MetH cobalamin dependent methionine synthase N N N N R Me Co Co N N N Me N HS CH 2 CH 2 NH 2 COOH C H H CH 2 CH 2 3 C NH 2 COOH XAS Applications 12 CH MetE cobalamin independent methionine synthase S
13 MetE (cobalamin independent MetSyn) contains Zn Zn is tightly bound Zn is required for activity Is Zn involved in reaction, or does it play a structural role? XAS Applications 13
14 The Zn site in MetE (cobalamin independent MetSyn) has ZnS 2 (O/N) 2 ligation. Addition of homocysteine changes ligation to ZnS 3 (O/N). Fourier Transform Magnitude EXAFS k Native +Hcy R + (Å) k (Å -1 ) XAS Applications 14
15 Fourier Transform Magnitude MetE Zn site changes on substrate binding MetH (cobalamin dependent) also contains Zn ZnS 2 (O/N) MetE +/- L-homocysteine MetH +/- L-homocysteine Enzyme Enzyme + substrate MetH +/- D-homocysteine R + (Å) ZnS 3 (O/N) ZnS 3 (O/N) ZnS XAS Applications 15 4
16 Fourier Transform Magnitude Changes in ligation are due to homocysteine binding to Zn 60 MetH (ZnS 3 O) MetE (ZnS NO) 2 Native 10 +Hcy +SeHcy R + (Å) XAS Applications 16
17 Se EXAFS confirms structural picture of Fourier Transform Magnitude MetE and MetH sites Se-C Se-Zn Se S Se S MetH MetE R + (Å) XAS Applications 17
18 Combination of Zn + Se EXAFS consistent with only a small distortion from tetrahedral geometry in substrate-bound enzyme XAS Applications 18
19 Protein Farnesyl transferase C 15 C 13 C 14 C 9 C 4 O O O O C 15 C 13 C12 C 11 C10 C 8 C7 C 6 C5 C 3 C2 C 1 O P 1 O P 2 O C 12 C 11 C 14 FPP C 10 C 8 C 7 C 6 C 9 CaaX, X=S,M,Q,C,A Peptide C 5 C 3 C 2 C 1 C 4 -C-a-a-X XAS Applications 19
20 Protein Farnesyl transferase XAS Applications 20
21 Ten FTase crystal structures are known Zn-S Pep Zn-S C 299 Zn-O H 2 O Zn-O D 297 Zn-O D 297 Zn-N H 362 FTase FPP NA Ternary Product Product+ FPP XAS Applications 21
22 40 Product complex 30 Ternary complex 20 FTase + I FTase k ( A -1 ) XAS Applications 22 o
23 Zn is 4-coordinate; peptide sulfur binds only in ternary complex FTase FTase+I2 Ternary Product Zn-(N/O) =2.04 Å Zn-S =2.31 Å Zn-S ternary =2.33 Å o XAS Applications R ( A) 23
24 Carboxylate shift may play an important role in activating peptide thiolate Asp O Zn O PepS-F + PP N His S Cys Pep-SH FPP Asp O O PepS Asp O O PepS Zn FPP N His S Cys Zn FPP N His S Cys + H + XAS Applications 24
25 Biological Zn sites Structural (Cys)S (Cys)S Zn S(Cys) S(Cys) Alkyl-transfer L 1 L 2 S(Cys) Zn S(substrate) XAS Applications 25
26 J. Am. Chem. Soc., 112 (10) 1990 p p XAS Applications 26
27 EXAFS shows that CN does not remain bound Fourier Transform Magnitude CuCN 2LiCl + 2 MeLi CuCN 2LiCl + MeLi CuCN 2LiCl Cu-C N Cu-C N-Cu Cu-Nearest Neighbor R+ (Å) XAS Applications 27
28 Structures of cyanocuprates in THF Cl Cu C N Cu C N MeLi Cu Me Cu C N MeLi Li C N Li Me Cu Me XAS Applications 28
29 Solution speciation of CuI+PhLi PhLi + CuI phenylcopper 2PhLi+ CuI diphenylcuprate Crystalline phenyl:copper species 1:1 Cu 4 Ph 4 (Me 2 S) 2 Cu 5 Mes 5 1.2:1 [Cu 5 Ph 6 ] 1.5:1 [Cu 4 LiPh 6 ] [Cu 4 MgPh 6 ] 2:1 [CuPh 2 ] [CuPh 2 Li] 2 [Cu 3 Li 2 Ph 6 ] XAS Applications 29
30 Titration of CuI+ n PhLi shows isosbestic behavior up to 1.2 equivalents 300 Normalized Absorbance n=0.0 n=0.2 n=0.4 n=0.6 n=0.8 n=1.0 n=1.1 n= Energy ( ev ) XAS Applications 30
31 Titration of CuI+ n PhLi shows isosbestic behavior from equivalents 300 Normalized Absorbance n=2.0 n=1.8 n=1.7 n=1.5 n=1.4 n=1.3 n= Energy ( ev ) XAS Applications 31
32 EXAFS data support XANES speciation Cu Composition CuI - CuPh Cu 5 Ph PhLi / CuI Ratio [CuI 2 ] [Cu 5 Ph 6 ] [CuPh 2 ] XAS Applications 32
33 Cl Cl Cl Cu Cl Cl Cl Cl Cl Cl Cl Cu + Cl Cl Cl Cl Cl Cl Cu Cl Cl XAS Applications 33
34 How to screw up you re the analysis of XAS data or some common errors, how to identify them, and how to (maybe) avoid them Biological X-ray Absorption 34
35 The job of a least-squares fitting program is to give you the best (smallest deviation) solution, not to give you the right solution. If you see something, it tells you something; if you see nothing, it tells you nothing. Biological X-ray Absorption 35
36 Common errors in EXAFS analysis Least-squares minimization Fourier Filtering Resolution Biological X-ray Absorption 36
37 Iterative refinements are especially susceptible to multiple minima Phosphorus scattering Carbon scattering R P P c Pd a b Me H 2 C C C Me Clot, et al., J. Am. Chem. Soc 2004, 126, Biological X-ray Absorption 37 N
38 Minima give very different structures but M-P nearly identical EXAFS N free vs. N obs M-C N obs ~ 300 ( k = 0.05 Å; k max = 15 Å) N free ~ (2 k R ) / sum Biological X-ray Absorption 38
39 M-O at 2.0 and 2.2 Å give two apparently well resolved peaks in FT Fourier transform magnitude R + (Å) Biological X-ray Absorption 39
40 Fitting each filtered peak gives the appearance of M-O and M-S EXAFS 10 8 "M-O" peak "M-S" peak EXAFS k k (Å -1 ) Biological X-ray Absorption 40
41 12 R 1 =1.75 Å, R 2 =2.00 Å R=1.875 Å 10 EXAFS resolution is ~ /2 k = 0.13 Å EXAFS k R 1 =1.85 Å, R 2 =2.00 Å R 1 =1.85 Å, R 2 =2.00 Å R=1.925 Å R=1.925 Å, damped k (Å -1 ) Biological X-ray Absorption 41
42 Summary The more variables you control, the more likely you are to obtain a unique solution Multiple data sets (elements, temperature, concentration, time, etc.) almost always help Conclusions are only as good as your model Biological X-ray Absorption 42
43 Outer shell scattering can provide ligand identification and geometric information Fourier Transform Magnitude Zn Radius + (Å) Biological X-ray Absorption 43 N NH
44 Multiple scattering makes EXAFS sensitive to angular arrangement of ligands Zn N NH Biological X-ray Absorption 44
45 However, ability to reliably determine geometry is limited Informa tion Pa rameters N N C C N C M C N O N C C N O M N Biological X-ray Absorption 45 R R3 R4 2 C O N R2 1 R1 O O
46 Dependence of XANES on Oxidation State Normalized Absorption II/II II/III III/III III/IV Energy (ev) Biological X-ray Absorption 46
47 XAS Applications 47
48 Mn XANES of PS II versus x-ray dose and XANES of inorganic model compounds. Yano J et al. PNAS 2005;102: by National Academy of Sciences
49 Spectral changes of PS II Mn EXAFS due to radiation damage with FTs (Left) and the k3-space EXAFS (Right). Yano J et al. PNAS 2005;102: by National Academy of Sciences
50 X-ray fluorescence imaging Korbas M et al. PNAS 2008;105: by National Academy of Sciences
51 Elemental distributions in MeHg exposed and unexposed zebrafish. Korbas M et al. PNAS 2008;105: by National Academy of Sciences
52 Se K x-ray absorption near-edge spectrum of A. Pickering I J et al. PNAS 2000;97: by National Academy of Sciences
53 Data reduction scheme for the method of chemically specific imaging. Pickering I J et al. PNAS 2000;97: by National Academy of Sciences
54 Chemically specific concentration images of different parts of A. bisulcatus. Pickering I J et al. PNAS 2000;97: by National Academy of Sciences
X-ray Spectroscopy. Lecture plan. A Critical Look at the Past Accomplishments and Future Prospects. Proposal body not more than 5 pages
X-ray Spectroscopy A Critical Look at the Past Accomplishments and Future Prospects James Penner-Hahn jeph@umich.edu Room 243 Monday Wednesday 3-5 PM and by appointment http://www.chem.usyd.edu.au/~penner_j/index.htm
More informationLecture 3. Applications of x-ray spectroscopy to inorganic chemistry
Lecture 3. Applications of x-ray spectroscopy to inorganic chemistry 1. Bioinorganic chemistry/enzymology. Organometallic Chemistry 3. Battery materials MetE (cobalamin independent MetSyn) contains Zn
More informationLecture 3. Data Analysis. Common errors in EXAFS analysis Z ± 10 N ± 1 R ± 0.02 Å
Lecture. Data Analysis Tutorials and other Training Material Bruce Ravel's notes on using FEFFIT for data analysis Daresbury Laboratory lectures on data analysis (EXURV9) Grant Buner's XAFS tutorials Frenel
More informationUnsolved problems in biology
Unsolved problems in biology What can advanced x-ray spectroscopy contribute? James Penner-Hahn Biophysics Research Division and Department of Chemistry The University of Michigan Metalloproteins 30-50%
More informationIntroduction to X-ray Absorption Near Edge Spectroscopy (XANES) Ritimukta Sarangi SSRL, SLAC Stanford University June 28, 2010
Introduction to X-ray Absorption Near Edge Spectroscopy (XANES) Ritimukta Sarangi SSRL, SLAC Stanford University June 28, 2010 Basics of X-ray Absorption Spectroscopy (XAS) An edge results when a core
More informationCharacterization of spectroscopically quiet metals in biology
Coordination Chemistry Reviews 249 (2005) 161 177 Contents Review Characterization of spectroscopically quiet metals in biology James E. Penner-Hahn Department of Chemistry, Biophysics Research Division,
More informationAn Introduction to XAFS
An Introduction to XAFS Matthew Newville Center for Advanced Radiation Sources The University of Chicago 21-July-2018 Slides for this talk: https://tinyurl.com/larch2018 https://millenia.cars.aps.anl.gov/gsecars/data/larch/2018workshop
More informationSolid State Spectroscopy Problem Set 7
Solid State Spectroscopy Problem Set 7 Due date: June 29th, 2015 Problem 5.1 EXAFS Study of Mn/Fe substitution in Y(Mn 1-x Fe x ) 2 O 5 From article «EXAFS, XANES, and DFT study of the mixed-valence compound
More informationX-ray Absorption Spectroscopy Eric Peterson 9/2/2010
X-ray Absorption Spectroscopy Eric Peterson 9/2/2010 Outline Generation/Absorption of X-rays History Synchrotron Light Sources Data reduction/analysis Examples Crystallite size from Coordination Number
More informationPart II. Fundamentals of X-ray Absorption Fine Structure: data analysis
Part II Fundamentals of X-ray Absorption Fine Structure: data analysis Sakura Pascarelli European Synchrotron Radiation Facility, Grenoble, France Page 1 S. Pascarelli HERCULES 2016 Data Analysis: EXAFS
More informationX-ray Absorption Spectroscopy. Kishan K. Sinha Department of Physics and Astronomy University of Nebraska-Lincoln
X-ray Absorption Spectroscopy Kishan K. Sinha Department of Physics and Astronomy University of Nebraska-Lincoln Interaction of X-rays with matter Incident X-ray beam Fluorescent X-rays (XRF) Scattered
More informationEXAFS. Extended X-ray Absorption Fine Structure
AOFSRR Cheiron School 2010, SPring-8 EXAFS Oct. 14th, 2010 Extended X-ray Absorption Fine Structure Iwao Watanabe Ritsumeikan University EXAFS Theory Quantum Mechanics Models Approximations Experiment
More informationX-ray Absorption Spectroscopy
X-ray Absorption Spectroscopy Matthew Newville Center for Advanced Radiation Sources University of Chicago 12-Sept-2014 SES VI SES VI 12-Sept-2014 SES VI What Is XAFS? X-ray Absorption Fine-Structure (XAFS)
More informationProbing Matter: Diffraction, Spectroscopy and Photoemission
Probing Matter: Diffraction, Spectroscopy and Photoemission Anders Nilsson Stanford Synchrotron Radiation Laboratory Why X-rays? VUV? What can we hope to learn? 1 Photon Interaction Incident photon interacts
More informationLecture 12. Metalloproteins - II
Lecture 12 Metalloproteins - II Metalloenzymes Metalloproteins with one labile coordination site around the metal centre are known as metalloenzyme. As with all enzymes, the shape of the active site is
More informationA method for normalization of X-ray absorption spectra
Journal of Synchrotron Radiation ISSN 0909-0495 Editors: Å. Kvick, D. M. Mills and T. Ohta A method for normalization of X-ray absorption spectra Tsu-Chien Weng, Geoffrey S. Waldo and James E. Penner-Hahn
More informationLecture 6: Physical Methods II. UV Vis (electronic spectroscopy) Electron Spin Resonance Mossbauer Spectroscopy
Lecture 6: Physical Methods II UV Vis (electronic spectroscopy) Electron Spin Resonance Mossbauer Spectroscopy Physical Methods used in bioinorganic chemistry X ray crystallography X ray absorption (XAS)
More informationGround State Electronic Structures. from. Multi-Edge Analysis
Ground State Electronic Structures from Multi-Edge Analysis Robert K. Szilagyi Montana State University, Bozeman, MT computational.chemistry.montana.edu Reminders: unique research opportunities (no other
More informationSpeciation of Actinides Using XAFS
Speciation of Actinides Using XAFS Part I Tobias Reich Johannes Gutenberg-Universität Mainz Institut für Kernchemie Ringvorlesung des GRK Elementspeziation im SS 2006 Mainz, 4.9.2006 Outline Introduction
More informationSupporting Information to
Supporting Information to 'Bisulfide reaction with natural organic matter enhances arsenite sorption: Insights from X-ray absorption spectroscopy' Martin Hoffmann, Christian Mikutta* and Ruben Kretzschmar
More informationSoft X-ray Physics DELNOR-WIGGINS PASS STATE PARK
Soft X-ray Physics Overview of research in Prof. Tonner s group Introduction to synchrotron radiation physics Photoemission spectroscopy: band-mapping and photoelectron diffraction Magnetic spectroscopy
More informationThe Use of Synchrotron Radiation in Modern Research
The Use of Synchrotron Radiation in Modern Research Physics Chemistry Structural Biology Materials Science Geochemical and Environmental Science Atoms, molecules, liquids, solids. Electronic and geometric
More informationMuffin-tin potentials in EXAFS analysis
J. Synchrotron Rad. (5)., doi:.7/s6577555 Supporting information Volume (5) Supporting information for article: Muffin-tin potentials in EXAFS analysis B. Ravel Supplemental materials: Muffin tin potentials
More informationScattering Lecture. February 24, 2014
Scattering Lecture February 24, 2014 Structure Determination by Scattering Waves of radiation scattered by different objects interfere to give rise to an observable pattern! The wavelength needs to close
More informationX-ray Spectroscopy. Interaction of X-rays with matter XANES and EXAFS XANES analysis Pre-edge analysis EXAFS analysis
X-ray Spectroscopy Interaction of X-rays with matter XANES and EXAFS XANES analysis Pre-edge analysis EXAFS analysis Element specific Sensitive to low concentrations (0.01-0.1 %) Why XAS? Applicable under
More informationIntroduction to XAFS. Applications of X-ray and neutron scattering in biology, chemistry and physics
Introduction to XAFS Applications of X-ray and neutron scattering in biology, chemistry and physics Jonas Andersen, ph.d. student, DTU Chemistry Bastian Brink, ph.d. student, DTU Mechanical Engineering
More informationStructural aspects. Povo (Trento), Italy. 1 Institute of Physics, Academy of Sciences of the Czech Republic, Prague
Structural aspects of B K edge XANES of minerals O. Šipr, 1 A. Šimůnek, 1 J. Vackář, 1 F. Rocca, G. Dalba 3 1 Institute of Physics, Academy of Sciences of the Czech Republic, Prague Istituto di Fotonica
More informationElectronic Structure and Oxidation State Changes in the Mn 4 Ca Cluster of
SLAC-PUB-15218 Electronic Structure and Oxidation State Changes in the Mn 4 Ca Cluster of Photosystem II Junko Yano, 1 Yulia Pushkar, 1 Johannes Messinger, 2 Uwe Bergmann, 3 Pieter Glatzel, 4 Vittal K.
More informationWhat are Naphthenic Acids: Source or Extraction Dependent?
What are Naphthenic Acids: Source or Extraction Dependent? N.S. Toor 1,2, C.H. Ryan 1, H.M. Gillis 1, B. Fahlman 3, K. Peru 3, J.V. Headley 3 1 Level Science Inc., 901, 119 4 th Ave South, Saskatoon, SK,
More informationName: (a) What core levels are responsible for the three photoelectron peaks in Fig. 1?
Physics 243A--Surface Physics of Materials: Spectroscopy Final Examination December 16, 2014 (3 problems, 100 points total, open book, open notes and handouts) Name: [1] (50 points), including Figures
More informationX-Ray Photoelectron Spectroscopy (XPS) Prof. Paul K. Chu
X-Ray Photoelectron Spectroscopy (XPS) Prof. Paul K. Chu X-ray Photoelectron Spectroscopy Introduction Qualitative analysis Quantitative analysis Charging compensation Small area analysis and XPS imaging
More informationStabilization of Mercury and Methyl Mercury by Biochars in Water/Sediment Microcosms
Stabilization of Mercury and Methyl Mercury by Biochars in Water/Sediment Microcosms Peng Liu, Carol Ptacek, David Blowes, Krista Paulson, Jing Ma, and Alana Ou Wang Introduction Department of Earth and
More informationEnzyme function: the transition state. Enzymes & Kinetics V: Mechanisms. Catalytic Reactions. Margaret A. Daugherty A B. Lecture 16: Fall 2003
Lecture 16: Enzymes & Kinetics V: Mechanisms Margaret A. Daugherty Fall 2003 Enzyme function: the transition state Catalytic Reactions A B Catalysts (e.g. enzymes) act by lowering the transition state
More informationCatalytic Reactions. Intermediate State in Catalysis. Lecture 16: Catalyzed reaction. Uncatalyzed reaction. Enzymes & Kinetics V: Mechanisms
Enzyme function: the transition state Catalytic Reactions Lecture 16: Enzymes & Kinetics V: Mechanisms Margaret A. Daugherty Fall 2003 A B Catalysts (e.g. enzymes) act by lowering the transition state
More informationPart 1: What is XAFS? What does it tell us? The EXAFS equation. Part 2: Basic steps in the analysis Quick overview of typical analysis
Introduction to XAFS Part 1: What is XAFS? What does it tell us? The EXAFS equation Part 2: Basic steps in the analysis Quick overview of typical analysis Tomorrow Measurement methods and examples The
More informationX-ray Absorption at the Near-edge and Its Applications
X-ray Absorption at the Near-edge and Its Applications Faisal M Alamgir faisal@msegatechedu School of Materials Science and Engineering, Georgia Institute of Technology Cartoon of XAS ln(i 0 /I t ) or
More informationIntroduction of X-ray Absorption Near Edge Structure (XANES)
Introduction of X-ray Absorption Near Edge Structure (XANES) 2012 년 2 월 29 일 11:00 11:50 Eun Suk Jeong February 29-March 1, 2012 xafs school Outline 1. Introduction of XANES 2. Structural and chemical
More informationEssential Chemistry for Biology
1 Chapter 2 Essential Chemistry for Biology Biology and Society: More Precious than Gold A drought is a period of abnormally dry weather that changes the environment and one of the most devastating disasters.
More informationChapter 10: Modern Atomic Theory and the Periodic Table. How does atomic structure relate to the periodic table? 10.1 Electromagnetic Radiation
Chapter 10: Modern Atomic Theory and the Periodic Table How does atomic structure relate to the periodic table? 10.1 Electromagnetic Radiation Electromagnetic (EM) radiation is a form of energy that exhibits
More informationSUPPLEMENTAL MATERIAL
SUPPLEMENTAL MATERIAL Zerovalent Iron with High Sulfur Content Enhances the Formation of Cadmium Sulfide in Reduced Paddy Soils Yohey Hashimoto 1*, Mitsuhiro Furuya 1, Noriko Yamaguchi 2*, and Tomoyuki
More informationCharacterization. of solid catalysts. 7. X-ray Absorption. XANES and EXAFS. Prof dr J W (Hans) Niemantsverdriet.
www.catalysiscourse.com Characterization of solid catalysts 7. X-ray Absorption XANES and EXAFS Prof dr J W (Hans) Niemantsverdriet Schuit Institute of Catalysis J.W. Niemantsverdriet, TU/e, Eindhoven,
More information1 of 5 14/10/ :21
X-ray absorption s, characteristic X-ray lines... 4.2.1 Home About Table of Contents Advanced Search Copyright Feedback Privacy You are here: Chapter: 4 Atomic and nuclear physics Section: 4.2 Absorption
More informationPhoton Interaction. Spectroscopy
Photon Interaction Incident photon interacts with electrons Core and Valence Cross Sections Photon is Adsorbed Elastic Scattered Inelastic Scattered Electron is Emitted Excitated Dexcitated Stöhr, NEXAPS
More informationSupporting Information
Supporting Information Molecular Mixed-Metal Manganese Oxido Cubanes as Precursors to Heterogeneous Oxygen Evolution Catalysts Sandy Suseno, [a] Charles C. L. McCrory, [b] Rosalie Tran, [c] Sheraz Gul,
More informationSupplementary Materials: Localization and Spectroscopic Analysis of the Cu(I) Binding Site in Wheat Metallothionein Ec-1
S1 of S8 Supplementary Materials: Localization and Spectroscopic Analysis of the Cu(I) Binding Site in Wheat Metallothionein Ec-1 Katsiaryna Tarasava, Jens Loebus and Eva Freisinger Figure S1. Deconvoluted
More informationPhotosynthetic Dioxygen Formation Monitored by Time-Resolved X-Ray Spectroscopy
Photosynthetic Dioxygen Formation Monitored by Time-Resolved X-Ray Spectroscopy Michael Haumann and Holger Dau Freie Universität Berlin, Inst. f. Experimentalphysik, Arnimallee 14, D-14195 Berlin, Germany,
More informationOrbitals and energetics
Orbitals and energetics Bonding and structure Molecular orbital theory Crystal field theory Ligand field theory Provide fundamental understanding of chemistry dictating radionuclide complexes Structure
More information489--Lectures 3 and 4. Fundamentals of Inorganic Chemistry
489--Lectures 3 and 4 Fundamentals of Inorganic Chemistry (with special relevance to biological systems) Some slides courtesy of Prof. Xuan Zhao (U. Memphis) and Prof. Yi Lu (U. Illinois) Fundamentals
More informationBonding in Solids. What is the chemical bonding? Bond types: Ionic (NaCl vs. TiC?) Covalent Van der Waals Metallic
Bonding in Solids What is the chemical bonding? Bond types: Ionic (NaCl vs. TiC?) Covalent Van der Waals Metallic 1 Ions and Ionic Radii LiCl 2 Ions (a) Ions are essentially spherical. (b) Ions may be
More informationMicroporous Manganese Formate: A Simple Metal-Organic Porous Material with High Framework Stability and Highly Selective Gas Sorption Properties
Supporting Information Microporous Manganese Formate: A Simple Metal-Organic Porous Material with High Framework Stability and Highly Selective Gas Sorption Properties Danil N. Dybtsev, Hyungphil Chun,
More informationSupporting Information. Dioxygen Activation and O-O Bond Formation Reactions by Manganese Corroles
Supporting Information Dioxygen Activation and O-O Bond Formation Reactions by Manganese Corroles Mian Guo, Yong-Min Lee, Ranjana Gupta, Mi Sook Seo, Takehiro Ohta, Hua-Hua Wang, Hai-Yang Liu, Sunder N.
More informationHow many grams of sodium metal is required to completely react with 2545 grams of chlorine gas?
EXAMPLE PROBLEM: How many grams of sodium metal is required to completely react with 2545 grams of chlorine gas? 1 - Convert 2545 grams of chlorine to moles chlorine using formula weight 2 - Convert moles
More informationComparative XAFS studies of some Cobalt complexes of (3-N- phenyl -thiourea-pentanone-2)
Journal of Physics: Conference Series PAPER OPEN ACCESS Comparative XAFS studies of some Cobalt complexes of (3-N- phenyl -thiourea-pentanone-2) To cite this article: Namrata soni et al 2016 J. Phys.:
More informationX-ray Crystallography
2009/11/25 [ 1 ] X-ray Crystallography Andrew Torda, wintersemester 2009 / 2010 X-ray numerically most important more than 4/5 structures Goal a set of x, y, z coordinates different properties to NMR History
More information1. What is an ångstrom unit, and why is it used to describe molecular structures?
1. What is an ångstrom unit, and why is it used to describe molecular structures? The ångstrom unit is a unit of distance suitable for measuring atomic scale objects. 1 ångstrom (Å) = 1 10-10 m. The diameter
More informationHow many grams of sodium metal is required to completely react with 2545 grams of chlorine gas?
146 EXAMPLE PROBLEM: How many grams of sodium metal is required to completely react with 2545 grams of chlorine gas? 1 - Convert 2545 grams of chlorine gas to moles. Use formula weight. 2 - Convert moles
More informationOverview. Sulfur XAS of Biological Tissues. X-ray Fluorescence Imaging of Sulfur: Application to Biology
X-ray Fluorescence Imaging of Sulfur: Application to Biology Ingrid J. Pickering Professor and Canada Research Chair in Molecular Environmental Science University of Saskatchewan ingrid.pickering@usask.ca
More informationCrystal Field Theory. 2. Show the interaction between the d-orbital and the negative point charge ligands
1. What is the crystal field model? Crystal Field Theory It is a model that views complex ions as being held together ionically (this is not actually the case, but it allows for a simplification of the
More informationSupporting Information. Spontaneous Si-C Bond Cleavage in (Triphos Si )-Nickel Complexes
Electronic Supplementary Material (ESI) for Dalton Transactions. This journal is The Royal Society of Chemistry 2016 Supporting Information Spontaneous Si-C Bond Cleavage in (Triphos Si )-Nickel Complexes
More informationCopper Chemistry. Cu : 1s 2 2s 2 2p 6 3s 2 3p 6 4s 1 3d 10
Copper Chemistry Cu : 1s 2 2s 2 2p 6 3s 2 3p 6 4s 1 3d 10 F. A. Cotton, G. Wilkinson, C. A. Murillo, M. Bochman, Advanced Inorganic Chemistry, 6 th ed., John Wiley, New York, pp. 855-864. 1 Cuhasasingleselectroninitsfourthshell.Onemaybeinclinedtothink,basedon
More informationSupporting Information
Supporting Information Figure S1. XRD patterns of ZnGa 2 O 4, GaN, ZnO, and Ga 2 O 3. Figure S2. SEM micrographs for ZnO (A), Ga 2 O 3 (B), GaN (C), ZnGa 2 O 4 (D). Figure S3A. Raman shifts associated
More informationCHEM J-2 June 2014
CHEM1611 014-J- June 014 Reaction of nitrogen-14 with a neutron forms two products, one of which is carbon-14. Radiocarbon dating involves the carbon-14 isotope which undergoes β-decay (emission of an
More informationLecture 15: Enzymes & Kinetics. Mechanisms ROLE OF THE TRANSITION STATE. H-O-H + Cl - H-O δ- H Cl δ- HO - + H-Cl. Margaret A. Daugherty.
Lecture 15: Enzymes & Kinetics Mechanisms Margaret A. Daugherty Fall 2004 ROLE OF THE TRANSITION STATE Consider the reaction: H-O-H + Cl - H-O δ- H Cl δ- HO - + H-Cl Reactants Transition state Products
More informationKorrelationsfunktionen in Flüssigkeiten oder Gasen
Korrelationsfunktionen in Flüssigkeiten oder Gasen mittlere Dichte Relaxationszeit T 0 L. Van Hove, Phys. Rev. 95, 249 (1954) Inelastische und quasielastische Streuung M. Bée, Chem. Phys. 292, 121 (2003)
More informationSIR MICHELANGELO REFALO SIXTH FORM Half-Yearly Exam 2016
SIR MICHELANGELO REFALO SIXTH FORM Half-Yearly Exam 2016 Subject: Chemistry Intermediate 1 st Year Time: 2Hrs Name: Useful information: 1 mole of gas occupies 22.4dm 3 at S.T.P Avogadro s constant is 6x10
More informationAtomic and Molecular Dimensions
1 Atomic and Molecular Dimensions Equilibrium Interatomic Distances When two atoms approach each other, their positively charged nuclei and negatively charged electronic clouds interact. The total interaction
More informationTime Resolved (Pump Probe) Experiment to watch structural dynamics by using the pulsed nature of synchrotron radiation
SESAME-JSPS School November 14-16, 2011 Amman, Jordan Time Resolved (Pump Probe) Experiment to watch structural dynamics by using the pulsed nature of synchrotron radiation Shin-ichi Adachi (Photon Factory,
More informationProtein crystallography. Garry Taylor
Protein crystallography Garry Taylor X-ray Crystallography - the Basics Grow crystals Collect X-ray data Determine phases Calculate ρ-map Interpret map Refine coordinates Do the biology. Nitrogen at -180
More informationPAPER No. : 11 and Inorganic Chemistry MODULE No.3 : and Structure of metal carbonyls and 18-electron rule applied to them. Paper No and Title
Subject Chemistry Paper No and Title Module No and Title Module Tag 11 : Inorganic Chemistry 3 : Structure of metal carbonyls and 18-electron rule applied to them CHE_P11_M3 TABLE OF CONTENTS 1. Learning
More informationXANES Measurements and Interpretation
XANES Measurements and Interpretation Simon R. Bare UOP LLC, Des Plaines, IL simon.bare@uop.com Page 1 Miscellaneous: E to k k = (2m(E-E 0 )/h 2 ) ½ k = (0.2625 x [E-E 0 ]) ½ W L 3 -edge XANES of tungsate
More informationNAME: SECTION #: Fill in your A00 number and name correctly on the scantron. Attempt all the questions and fill in the bubbles with your answers.
NAME: SECTION #: Chemistry 111 EXAM 2- Fall 2013 10/25/2013/12:00PM/Odago Fill in your A00 number and name correctly on the scantron. Attempt all the questions and fill in the bubbles with your answers.
More information- Atomic line spectra are UNIQUE to each element. They're like atomic "fingerprints".
- Atomic line spectra are UNIQUE to each element. They're like atomic "fingerprints". - Problem was that the current model of the atom completely failed to explain why atoms emitted these lines. An orbit
More informationLecture 5: Characterization methods
Lecture 5: Characterization methods X-Ray techniques Single crystal X-Ray Diffration (XRD) Powder XRD Thin film X-Ray Reflection (XRR) Microscopic methods Optical microscopy Electron microscopies (SEM,
More informationADVANCED PLACEMENT CHEMISTRY CHAPTERS 7, 8 AND 9 REVIEW QUESTIONS
1. What is the minimum wavelength (in nm) of a photon of light that can excite an electron in the hydrogen atom from the n = 1 to the n = 8 energy level? 2. A carbonoxygen double bond in a certain organic
More informationLocal Atomic Structure and Electronic State of ZnS Films Synthesized by Using CBD Technique
Materials Transactions, Vol. 43, No. 7 (2002) pp. 1512 to 1516 Special Issue on Grain Boundaries, Interfaces, Defects and Localized Quantum Structures in Ceramics c 2002 The Japan Institute of Metals Local
More informationSupporting Information For: Photocatalytic Water Oxidation by Very Small Cobalt Domains on a Silica Surface
Supporting Information For: Photocatalytic Water Oxidation by Very Small Cobalt Domains on a Silica Surface Hyun S. Ahn, Junko Yano, and T. Don Tilley* Contribution from the Department of Chemistry University
More informationMechanisms of Inorganic Reactions HS -26
Mechanisms of Inorganic Reactions HS -26 A. Ligand Substitution Reactions Octahedral Co(III), Cr(III) Dissociative mechanism Square Planar Pt(II) Associative mechanism trans effect in Pt(II) complexes
More informationTransition Elements. pranjoto utomo
Transition Elements pranjoto utomo Definition What is transition metal? One of which forms one or more stable ions which have incompletely filled d orbitals. 30Zn? Definition Zink is not transition elements
More informationRDCH 702 Lecture 8: Accelerators and Isotope Production
RDCH 702 Lecture 8: Accelerators and Isotope Production Particle generation Accelerator Direct Voltage Linear Cyclotrons Synchrotrons Photons * XAFS * Photonuclear Heavy Ions Neutrons sources Fission products
More informationSpectroscopy of Nanostructures. Angle-resolved Photoemission (ARPES, UPS)
Spectroscopy of Nanostructures Angle-resolved Photoemission (ARPES, UPS) Measures all quantum numbers of an electron in a solid. E, k x,y, z, point group, spin E kin, ϑ,ϕ, hν, polarization, spin Electron
More informationSupporting Information. CdS/mesoporous ZnS core/shell particles for efficient and stable photocatalytic hydrogen evolution under visible light
Electronic Supplementary Material (ESI) for Energy & Environmental Science. This journal is The Royal Society of Chemistry 2014 Supporting Information CdS/mesoporous ZnS core/shell particles for efficient
More informationSUPPLEMENTARY INFORMATION
Efficient hydrogen evolution catalysis using ternary pyrite-type cobalt phosphosulphide Miguel Cabán-Acevedo 1, Michael L. Stone 1, J. R. Schmidt 1, Joseph G. Thomas 1, Qi Ding 1, Hung- Chih Chang 2, Meng-Lin
More informationChemistry Day 37. Monday, December 10 th Tuesday, December 11 th, 2018
Chemistry Day 37 Monday, December 10 th Tuesday, December 11 th, 2018 Do-Now: Reaction Types CN 1. Write down today s FLT 2. What does the Law of Conservation of Mass tell us? Aluminum oxide yields solid
More informationLarge-Scale Synthesis of Transition-metal Doped TiO 2 Nanowires. with Controllable Overpotential
Large-Scale Synthesis of Transition-metal Doped TiO 2 Nanowires with Controllable Overpotential Bin Liu 1, Hao Ming Chen, 1 Chong Liu 1,3, Sean C. Andrews 1,3, Chris Hahn 1, Peidong Yang 1,2,3,* 1 Department
More information4.1 Atomic structure and the periodic table. GCSE Chemistry
4.1 Atomic structure and the periodic table GCSE Chemistry All substances are made of atoms this is cannot be chemically broken down it is the smallest part of an element. Elements are made of only one
More informationReaction Landscape of a Pentadentate N5-Ligated Mn II Complex with O 2
Electronic Supplementary Information for: Reaction Landscape of a Pentadentate N5-Ligated Mn II Complex with O - and H O Includes Conversion of a Peroxomanganese(III) Adduct to a Bis(µ- O)dimanganese(III,IV)
More informationReview 6: Modern Atomic Theory. Copyright Cengage Learning. All rights reserved. 11 1
Review 6: Modern Atomic Theory Copyright Cengage Learning. All rights reserved. 11 1 The concept of the nuclear atom left unanswered questions about 1. why the nucleus is so dense. 2. why the negative
More informationMcCord CH301 Exam 2 Oct 10, 2017
452 version last name first name signature McCord CH301 Exam 2 Oct 10, 2017 50070 Tuesday Remember to refer to the Periodic Table handout that is separate from this exam copy. There are many conversion
More informationto Soil Components and EFPC Soils
On the tickiness of Mercury(II) to Soil Components and EFPC Soils Kathryn L. Nagy University of Illinois at Chicago Brett Poulin, Joseph N. Ryan University of Colorado Boulder George R. Aiken USGS Alain
More informationCHEM 463: Advanced Inorganic Chemistry Modeling Metalloproteins for Structural Analysis
CHEM 463: Advanced Inorganic Chemistry Modeling Metalloproteins for Structural Analysis Purpose: The purpose of this laboratory is to introduce some of the basic visualization and modeling tools for viewing
More informationX-ray absorption spectroscopy
X-ray absorption spectroscopy Jagdeep Singh Jeroen A. van Bokhoven Absorption as function of energy of the x-ray Data-analysis Absorption (a.u.) 2.0 Pre-edge subtraction 1.5 1.0 0.5 0.0-0.5 8800 9000 9200
More informationElectronic Supplementary Information
Electronic Supplementary Information A Sensitive Phosphorescent Thiol Chemosensor Based on an Iridium(III) Complex with α,β-unsaturated Ketone Functionalized 2,2 -Bipyridyl Ligand Na Zhao, a Yu-Hui Wu,
More informationTransition Metal Elements and Their Coordination Compounds
Fernando O. Raineri Office Hours: MWF 9:30-10:30 AM Room 519 Tue. 3:00-5:00 CLC (lobby). Transition Metal Elements and Their Coordination Compounds 2 Compounds. Naming and Geometry. 1 3 p.1046a 4 Fig.
More informationSupporting information
Supporting information Sensitizing Tb(III) and Eu(III) Emission with Triarylboron Functionalized 1,3-diketonato Ligands Larissa F. Smith, Barry A. Blight, Hee-Jun Park, and Suning Wang* Department of Chemistry,
More informationInorganic Chemistry I (CH331) Solid-state Chemistry I (Crystal structure) Nattapol Laorodphan (Chulabhorn Building, 4 th Floor)
Inorganic Chemistry I (CH331) Solid-state Chemistry I (Crystal structure) Nattapol Laorodphan (Chulabhorn Building, 4 th Floor) 7/2013 N.Laorodphan 1 Text books : 1. D.F. Sheiver, P.W. Atkins & C.H. Langford
More informationIntroduction to X-ray Photoelectron Spectroscopy (XPS) XPS which makes use of the photoelectric effect, was developed in the mid-1960
Introduction to X-ray Photoelectron Spectroscopy (XPS) X-ray Photoelectron Spectroscopy (XPS), also known as Electron Spectroscopy for Chemical Analysis (ESCA) is a widely used technique to investigate
More informationMAJOR FIELD TEST IN CHEMISTRY SAMPLE QUESTIONS
MAJOR FIELD TEST IN CHEMISTRY SAMPLE QUESTIONS The following questions illustrate the range of the test in terms of the abilities measured, the disciplines covered, and the difficulty of the questions
More informationIf you put an electron into the t 2g, like that for Ti 3+, then you stabilize the barycenter of the d orbitals by 0.4 D o.
Crystal Field Stabilization Energy Week 2-1 Octahedral Symmetry (O h ) If you put an electron into the t 2g, like that for Ti 3+, then you stabilize the barycenter of the d orbitals by 0.4 D o. Each additional
More informationThe periodic system of the elements. Predict. (rather than passively learn) Chemical Properties!
The periodic system of the elements Study of over 100 elements daunting task! Nature has provided the periodic table Enables us to correlate an enormous amount of information Predict (rather than passively
More informationStructural characterization. Part 2
Structural characterization Part Determining partial pair distribution functions X-ray absorption spectroscopy (XAS). Atoms of different elements have absorption edges at different energies. Structure
More information