INTRODUCTION Massive inorganic crystal structure predictions were recently Performed, justifying the creation of new databases. Among them, the PCOD [1]

Slides:



Advertisements
Similar presentations
Powder X-ray diffraction – the uses
Advertisements

Data and metadata in the Reciprocal Net John C. Bollinger Indiana University Molecular Structure Center, Bloomington, IN.
The MISSYM Family: Software for the detection of Missed or Pseudo Symmetry A.L.Spek Utrecht University The Netherlands.
PLATON, New Options Ton Spek, National Single Crystal Structure Facility, Utrecht, The Netherlands. Delft, Sept. 18, 2006.
Spreadsheet software 1. Spreadsheets 2 Spreadsheet software Components of spreadsheets Labels - are used for titles, headings, names, and for identifying.
An introduction to the Rietveld method Angus P. Wilkinson School of Chemistry and Biochemistry Georgia Institute of Technology.
Electron Diffraction Applications Using the PDF-4+ Relational Database.
Practice of analysis and interpretation of X-ray diffraction data
Crystal Structural Behavior of CoCu₂O₃ at High Temperatures April Jeffries*, Ravhi Kumar, and Andrew Cornelius *Department of Physics, State University.
Chem Single Crystals For single crystals, we see the individual reciprocal lattice points projected onto the detector and we can determine the values.
Small Molecule Example – YLID Unit Cell Contents and Z Value
CHE (Structural Inorganic Chemistry) X-ray Diffraction & Crystallography lecture 3 Dr Rob Jackson LJ1.16,
Frontiers Between Crystal Structure Prediction and Determination by Powder Diffractometry Armel Le Bail Université du Maine, Laboratoire des Oxydes et.
Timothy G. Fawcett, Soorya N. Kabbekodu, Fangling Needham and Cyrus E. Crowder International Centre for Diffraction Data, Newtown Square, PA, USA Experimental.
Inorganic Structure Prediction with GRINSP Armel Le Bail Université du Maine, Laboratoire des oxydes et Fluorures, CNRS UMR 6010, Avenue O. Messiaen,
Chemical and Structural Classifications. Chemical and Structural Classification What? Materials can be classified by their chemistry and structure. There.
I DENTIFICATION OF main flow structures for highly CHANNELED FLOW IN FRACTURED MEDIA by solving the inverse problem R. Le Goc (1)(2), J.-R. de Dreuzy (1)
Inorganic structure prediction : too much and not enough Armel Le Bail Université du Maine, Laboratoire des oxydes et Fluorures, CNRS UMR 6010, Avenue.
CENG151 Introduction to Materials Science and Selection
Microporous Titanium Silicates Predicted by GRINSP Armel Le Bail Université du Maine, Laboratoire des oxydes et Fluorures, CNRS UMR 6010, Avenue O. Messiaen,
NIST and other spectral databases John C. Huffman IUMSC.
Percent Composition, Empirical Formulas, Molecular Formulas
CHE (Structural Inorganic Chemistry) X-ray Diffraction & Crystallography lecture 2 Dr Rob Jackson LJ1.16,
Phase Identification by X-ray Diffraction
The Need for Speed. The PDF-4+ database is designed to handle very large amounts of data and provide the user with an ability to perform extensive data.
Electron Diffraction Search and Identification Strategies.
Molecular Graphics. Molecular Graphics What? PDF-4 products contain data sets with atomic coordinates. A molecular graphic package embedded in the product.
Data Mining with DDView+ and the PDF-4 Databases Solid Solution Crystal Cell Parameters Some slides of this tutorial have sequentially-layered information.
Crystallography Open Database (COD), Predicted Crystallography Open Database (PCOD) and Material Properties Open Database (MPOD)
INTRODUCTION The COD was created in March 2003 and was built on the PDB model of open access on the Internet. It is intended that this database [1] consists.
SIeve+ Introduction SIeve+ is a Plug-In module to the DDView+ software which is integrated in the PDF-4 products. SIeve+ is licensed separately at an additional.
CONCLUSIONS COD server is technically in position to store and serve all structures that are currently solved. COD deposition procedure ensures syntactic.
McMaille – Sous le Capot (Under the Bonnet) A.Le Bail Université du Maine Laboratoire des Oxydes et Fluorures CNRS – UMR 6010 FRANCE
Determination of Crystal Structure (From Chapter 10 of Textbook 2) Unit cell  line positions Atom position  line intensity (known chemistry) Three steps.
EMBL-EBI MSDpisa a web service for studying Protein Interfaces, Surfaces and Assemblies Eugene Krissinel
1 SIeve+ Introduction SIeve+ is a Plug-In module to the DDView+ software which is integrated in the PDF-4 products. SIeve+ is licensed separately at an.
The PCOD and P2D2 databases (P for Predicted) Armel Le Bail Université du Maine, Laboratoire des oxydes et Fluorures, CNRS UMR 6010, Avenue O. Messiaen,
Methyl Bromide : Spectroscopic line parameters in the 10-μm region D. Jacquemart 1, N. Lacome 1, F. Kwabia-Tchana 1, I. Kleiner 2 1 Laboratoire de Dynamique,
Rotational spectroscopy of two telluric compounds : vinyl- and ethyl-tellurols R.A. MOTIYENKO, L. MARGULES, M. GOUBET Laboratoire PhLAM, CNRS UMR 8523,
Data Mining with DDView+ and the PDF-4 Databases Carbamazepine Polymorphs Some slides of this tutorial have sequentially-layered information that is best.
Sorting Options. Search Preferences What? – Search Preferences allow the customization of the DDView+ Results table display fields. Why? – To view the.
69 th International Symposium on Molecular Spectroscopy / Champaign-Urbana, Illinois, USA, June 16–20, 2014 CH 4, C 2 H 4, SF 6 AND CF 4 CALCULATED SPECTROSCOPIC.
INTRODUCTION The results from a third structure determination by powder diffractometry (SDPD) round-robin are summarized. From the 175 potential participants.
COD (CRYSTALLOGRAPHY OPEN DATABASE) and PCOD (PREDICTED) COD Advisory Board : Daniel Chateigner (France), XiaoLong Chen (China), Marco E. Ciriotti (Italy),
65th Ohio State University Symposium on Molecular Spectroscopy June 21–25, 2010 Stark spectrum simulation of X 2 Y 4 asymmetric molecules: application.
News in Open Databases COD, PCOD, TCOD, MPOD, FPSM … Association Française de Cristallographie 2013, Bordeaux D. Chateigner, S. Grazulis, J. Butkus, A.
Membrane protein session Erice Introduction Werner Kühlbrandt5 min Aquaporin 0Tom Walz30+5 min Na + /H + antiporterCarola Hunte30+5 min EM and.
Percent Yield Objectives: 6.0 Solve stoichiometric problems involving relationships among the number of particles, moles, and masses of reactants and products.
An analytical potential for the for the a 3  + state of KLi, (derived from observations of the upper vibrational levels only) Houssam Salami, Amanda Ross,
Protein Tertiary Structure Prediction Structural Bioinformatics.
X-ray powder diffraction
EBB245 Material Characterisations Lecture 2. X-ray Diffraction Methods Dr Zainovia Lockman Lecture 2. X-ray Diffraction Methods Dr Zainovia Lockman 1.
Prepared By – Amit $hah M.Pharm 1 st sem QA Roll NO :- 03 Guided By – Mr. Pinak R. Patel Assistant Professor Dept. P’ceutical Chem. D Dharmaj Degree Pharmacy.
Methods in Chemistry III – Part 1 Modul M. Che
Structure Prediction (especially with GRINSP)
CHARACTERIZATION OF THE STRUCTURE OF SOLIDS
Recent activities around the crystallography open databases COD, PCOD and P2D2 Armel Le Bail Université du Maine, Laboratoire des oxydes et Fluorures,
The Rietveld Method Armel Le Bail
McMaille v3: indexing via Monte Carlo search
Monte Carlo indexing with McMaille
Institute of Biotechnology
Advances in Structure Prediction of Inorganic Compounds
COD (CRYSTALLOGRAPHY OPEN DATABASE) and PCOD (PREDICTED)
PREDICTED CORNER SHARING TITANIUM SILICATES
ICDD Release 2008 New Features
Vocabulary Percent Composition -
Inorganic Structure Prediction with GRINSP
Instructors Tim Fawcett Suri Kabekkodu Diane Sagnella
Getting Cell Parameters from Powder Diffraction Data
Data Mining – Minor Phase Analysis
Presentation transcript:

INTRODUCTION Massive inorganic crystal structure predictions were recently Performed, justifying the creation of new databases. Among them, the PCOD [1] (Predicted Crystallography Open Database) contains the crystal data of predicted titanosilicates, phosphates, vanadates, niobates, fluoroaluminates (etc), by using the GRINSP [2] software. These databases open now the possibility for the identification of a newly synthesized compound by the comparison of its experimental powder pattern with predicted ones. The powder patterns calculated from the > PCOD entries were gathered into the P2D2 (Predicted Powder Diffraction Database) [3-4], allowing for the identification of inorganic compounds by using any classical search-match software. INTRODUCTION Massive inorganic crystal structure predictions were recently Performed, justifying the creation of new databases. Among them, the PCOD [1] (Predicted Crystallography Open Database) contains the crystal data of predicted titanosilicates, phosphates, vanadates, niobates, fluoroaluminates (etc), by using the GRINSP [2] software. These databases open now the possibility for the identification of a newly synthesized compound by the comparison of its experimental powder pattern with predicted ones. The powder patterns calculated from the > PCOD entries were gathered into the P2D2 (Predicted Powder Diffraction Database) [3-4], allowing for the identification of inorganic compounds by using any classical search-match software. PCOD and P2D2 Content SEARCHING PCOD Search page Results : CIFs SEARCHING PCOD Search page Results : CIFs VIRTUAL MODELS in PCOD/P2D2 Zeolite B 2 O 3 nanotubes VIRTUAL MODELS in PCOD/P2D2 Zeolite B 2 O 3 nanotubes CONCLUSION To be successful, identification attempts require mainly accurate predicted cell parameters. Many improvements, by using empirical or ab initio approaches, will be needed in order to restrict the number of structure candidates to those having really a chance to exist (quite a difficult task). Prediction is obviously a large part of our future in crystallography, the P2D2 represents a small new step in that direction, allowing to solve a crystal structure at the identification stage, when all structures will be predicted… CONCLUSION To be successful, identification attempts require mainly accurate predicted cell parameters. Many improvements, by using empirical or ab initio approaches, will be needed in order to restrict the number of structure candidates to those having really a chance to exist (quite a difficult task). Prediction is obviously a large part of our future in crystallography, the P2D2 represents a small new step in that direction, allowing to solve a crystal structure at the identification stage, when all structures will be predicted… REFERENCES [1] Predicted Crystallography Open Database – [2] A. Le Bail, J. Appl. Cryst. 38 (2005) [3] A. Le Bail, Powder Diffraction 23 (2008) S5-S12. [4] Predicted Powder Diffraction Database – REFERENCES [1] Predicted Crystallography Open Database – [2] A. Le Bail, J. Appl. Cryst. 38 (2005) [3] A. Le Bail, Powder Diffraction 23 (2008) S5-S12. [4] Predicted Powder Diffraction Database – The Predicted Powder Diffraction Database (P2D2) Armel Le Bail Université du Maine, Laboratoire des Oxydes et Fluorures, CNRS UMR6010, Av. O. Messiaen, Le Mans Cedex 9, France - The Predicted Powder Diffraction Database (P2D2) Armel Le Bail Université du Maine, Laboratoire des Oxydes et Fluorures, CNRS UMR6010, Av. O. Messiaen, Le Mans Cedex 9, France - [Ca 3 Al 4 F 21 ] 3- Predicted crystal structures (from the PCOD) provide predicted fingerprints: calculated powder patterns, inserted into the P2D2 Calculated powder patterns in the P2D2 allow for identification by search-match (EVA - Bruker and Highscore - Panalytical) Providing a way for « immediate structure solution » We « simply » need for a complete database of predicted structures ;-) Search-Match with EVA using the PCOD/P2D2 predicted structures Example 1 – The actual and virtual structures have the same chemical formula, PAD = 0.52% (percentage of absolute difference on cell parameters, averaged) :  -AlF 3, tetragonal, a = Å, c = Å. Predicted : Å, Å. A global search (no chemical restraint) is resulting in the actual compound (PDF-2) in first position and the virtual one (P2D2) in 2 nd (green mark in the toolbox). Example 2 – Model showing uncomplete chemistry, PAD = Predicted framework : Ca 4 Al 7 F 33, cubic, a = Å. Actual compound : Na 4 Ca 4 Al 7 F 33, a = Å. By a search with chemical restraints (Ca + Al + F) the virtual model comes in fifth position, after 4 PDF-2 correct entries, if the maximum angle is limited to 30°(2  ) : Example 3 – Model showing uncomplete chemistry, PAD = Actual compound : K 2 TiSi 3 O 9  H 2 O, orthorhombic, a = Å, b = Å, c = Å. Predicted framework : TiSi 3 O 9, a = 7.22 Å, b = 9.97 Å, c =12.93 Å. Without chemical restraint, the correct PDF-2 entry is coming at the head of the list, but no virtual model. By using the chemical restraint (Ti + Si + O), the correct PPDF-1 entry comes in second position in spite of large intensity disagreements with the experimental powder pattern (K and H 2 O are lacking in the PCOD model) :