141. Chemistry - Links For Chemists - Reference - Molecular Modelling Links for Chemists (19952004) is an index of Chemistry resources on the WWW, this section links to molecular modelling resources. http://www.liv.ac.uk/Chemistry/Links/refmodl.html

Links for Chemists Chemistry section of the WWW Virtual Library Virtual Library Science Chemistry : Molecular Modelling / Visualisation Resources 3D Molecular Designs US 3D Molecular Modelling @ Toyaku JP 3D Molecules @ Crete GR FR C4: Computers in Chemistry at Cabrillo College (Molecular visualization) @ Cabrillo College US Chemie in vier Dimensionen @ Saarland DE Chemistry Pictures @ Swedish University Network SE ChemVisu @ Friburg CH Chemist's Art Gallery @ CSC FI Chemical Bonds, Molecular Shapes, and Molecular Models @ Eastern Oregon US ChemVis: Chemical visualization on the Internet @ Erlangen DE ChemViz - Chemical visualization @ NCSA US Chime Pages @ Dublin City IE Chime Resources @ Uni. Massachusetts US BioMolecular Tutorials in Chime @ Erlangen DE Crystal Structures of Minerals @ Manchester UK ExPASy (Protein modelling) CH Garlic (Free Molecular Visualization Program) HR @ Pittsburgh US Ghemical (Unix based freeware molecular modelling package) @ Kuopio FI HyperChem Mailing List @ HyperChem Inc. US IMB Jena Image Library of Biological Macromolecules @ Jena DE Indiana University Molecular Structure Center @ Indiana US Indigo Instruments (Molecular models) US Introduction to Computational Chemistry (Book by Frank Jensen) @ Odense DK Introduction to Molecular Modelling @ Brunel UK Java Chemical Sample 3D Molecule Structure Viewer US Library of 3-D Molecular Structures @ NYU US MacroModel @ Columbia US MathMol (Mathematics and Molecules) @ NYU US Med. Chem. Feature Molecule

142. Virtual Student Model Kit WWU Virtual molecular Model Kit Below are a variety of instructional molecules that can be viewed if you have installed either RasMol or Chemscape Chime http://atom.chem.wwu.edu/dept/vmolckit/molecule.html

WWU Virtual Molecular Model Kit This page was created for our organic chemistry students (Chemistry 351) who might prefer using the computer to a physical model set. However, we hope others will also enjoy using it. Below are a variety of instructional molecules that can be viewed if you have installed either RasMol or Chemscape Chime as a plug-in viewer in your web browser. At the bottom of the page are links to some other RasMol and Chime sites. These molecules can be Interactively sized and rotated. - Left mouse button = rotate. - Shift + left mouse button = zoom. - Right mouse button = translate if using RasMol. - With RasMol the menus are at the top of the window. - With Chime pressing the right mouse button brings up the menus. Most of these molecules can be viewed best by using the "Sticks" option under the Display menu. Have Fun !!! Organic Molecules Alkanes methane ethane eclipsed ethane staggered butane eclipsed (0) ... hexane - all anti Cycloalkanes C3-C5 cyclopropane cyclobutane folded cyclobutane planar cyclopentane envelope ... cyclopentane half-chair Cyclohexane Chair cyclohexane chair cyclohexane axial H coded cyclohexane equatorial H coded .....Compare axial and equatorial H's side by side

143. ExPASy Proteomics Server SWISSMODEL Repository - Automatically generated protein models Links to lists of molecular biology resources, Links to some major molecular biology http://www.expasy.org/

Site Map Search ExPASy Contact us Search Swiss-Prot/TrEMBL Swiss-Prot/TrEMBL (full text) PROSITE SWISS-2DPAGE ENZYME NEWT Taxonomy HAMAP families ExPASy web site for The ExPASy Server requires Javascript to be fully functional. You may not see all the information available for this page (More information) ExPASy Proteomics Server The ExPASy ( Ex pert P rotein A nalysis Sy stem) proteomics server of the Swiss Institute of Bioinformatics (SIB) is dedicated to the analysis of protein sequences and structures as well as 2-D PAGE ( References Announcements Job opening Mirror Sites Databases Tools and software packages Swiss-Prot and TrEMBL - Protein knowledgebase PROSITE - Protein families and domains SWISS-2DPAGE - Two-dimensional polyacrylamide gel electrophoresis ENZYME - Enzyme nomenclature SWISS-3DIMAGE - 3D images of proteins and other biological macromolecules SWISS-MODEL Repository - Automatically generated protein models GermOnLine - Knowledgebase on germ cell differentiation Ashbya Genome Database Links to many other molecular biology databases Proteomics and sequence analysis tools Proteomics ... Aldente (PMF), Phenyx (MS/MS)

144. Elsevier.com - Journal Of Molecular Graphics And Modelling Researchers in computer graphics, molecular modelling, and automation for chemical engineering, engineered materials, and pharmaceutical research. http://www.elsevier.com/wps/find/journaldescription.cws_home/525012/description

Home Site map Regional Sites Advanced Product Search ... Journal of Molecular Graphics and Modelling Journal information Product description For Authors Online Submission Journal related information Most downloaded articles Other journals in same subject area About Elsevier Select your view The page you are looking for might have been (re)moved or is currently unavailable. Suggestions: Please review your URL in the Address bar, or Click the Refresh button in your local browser, or Go to Homepage, or Go to Previous Page to verify your action, or Go to the Site map, or Go to Search Box on top of this page for a search Printer-friendly version Home Site map Terms and Conditions ... Feedback A Reed Elsevier company Elsevier B.V.

145. CHEMICAL BONDS, MOLECULAR SHAPES, AND MOLECULAR MODELS In this tutorial viewing and manipulation of 3D models of molecules requires that the MDL Chemscape Chime plugin be installed in your computer. http://www.eou.edu/chemweb/molmodel/mmp1.html

146. Molecular Modelling Toolbox molecular Modelling Logo molecular Modelling Toolbox. General Documents. The NIH Guide to molecular Modelling is a comprehensive introduction to http://webnet.mednet.gu.se/chemistry/molmod/

HTTP 200 Document follows Date: Sat, 17 Sep 2005 08:20:39 GMT Server: NCSA/1.5.2 Last-modified: Sat, 27 Mar 1999 01:41:12 GMT Content-type: text/html Content-length: 4263 Molecular Modelling Toolbox General Documents The NIH Guide to Molecular Modelling is a comprehensive introduction to computational chemistry. Getting Started Molecular Mechanics Quantum Mechanics References Structure Databases Klotho , the biochemical compounds declarative database, is a collection of molecules of interest to the computational biochemist. Search the Protein Data Bank with a graphical interface or use PDB At A Glance , a hypertext-based table of contents from NIH . If you need to access the latest version of the database, try the webserver at the Brookhaven Laboratory Structural Classification of Proteins (SCOP) is a WWW-service with PDB entries listed in the context of secondary/tertiary structure from University of Cambridge SWISS-3DIMAGE is a database of annotated 3D images Amino acids Basic biomolecules , required knowledge for 1st semester students at the medical faculty A large collection of structure databases and other modelling resources is maintained by NIH Online User Manuals The Cambridge Structural Data Base Web manual , contact Staffan Sundell for information on how to access the CSD software.

147. SpringerLink - Publication UCSF Chimera Home PageUCSF Chimera is a highly extensible, interactive molecular graphics program. a shared molecular modelling session over a standard network connection. http://springerlink.metapress.com/openurl.asp?genre=journal&issn=1610-2940

148. BUBL LINK: Molecular Modelling Subjects molecular modelling, nuclear energy, particle physics, spectroscopy Subjects diseases, medical software, molecular modelling, pharmaceutics http://bubl.ac.uk/link/m/molecularmodelling.htm

BUBL LINK Catalogue of Internet Resources Home Search Subject Menus Countries ... Z Molecular modelling Titles Descriptions Basics of NMR Chemical Bonds, Molecular Shapes, and Molecular Models CLIC Consortium Electronic Journal Project Common Molecules Collection ... Theochem Comments: bubl@bubl.ac.uk Basics of NMR Hypertextbook covering the physics and mathematics behind Nuclear Magnetic Resonance (NMR). Includes chapters on spin physics, spectroscopy and pulse sequences, and provides explanatory graphics which can be viewed alongside the text, a glossary and a list of symbols. Author: Hornak, Joseph P. Subjects: molecular modelling, nuclear energy, particle physics, spectroscopy DeweyClass: Resource type: non-fiction ebook Chemical Bonds, Molecular Shapes, and Molecular Models Tutorial designed to assist students to construct models of molecules using model kits. Includes definitions of molecular shape, electron pair geometry, non-metal bonding patterns, and a self-assessment quiz. Author: Eastern Oregon University Subjects: molecular modelling DeweyClass: Resource type: guide CLIC Consortium Electronic Journal Project The primary objective of the CLIC consortium is to introduce and set standards for new ways of communicating molecular science, to specialists and to a larger, more diverse audience in education and industry. The intention is to enhance the perception, understanding, availablity and quality of scientific knowledge. Subjects covered within the broad area of chemistry are the development of molecular computers, high temperature superconductors, and advances in biotechnology.

149. Modeling Molecules, Particles & Plantary Systems With VRML & Java3d modeling Molecules in Motion, Particles and Planetary Systems Animated with VRML,Java3d and VRML Loaders for Java3d. http://www.frontiernet.net/~imaging/molecular_modeling.html

The "Java Molecular Viewer" (JMV) is a molecule viewer program written in Java and Java3D developed by the NIH ( the US National Institute Of Health ). It is designed to be an easy-to-use, platform neutral molecular visualization tool which can be used standalone or integrated into a larger program. It provides several molecular representations, multiple coloring styles, lighting controls, and stereoscopic rendering capabilities. It loads VRML and PDB files over the web, from the RCSB protein databank, from BioCoRE filesystems, and from local filesystems. http://freshmeat.net/projects/jmv/ Run the Demo Java3d required Java Source Code is available: Download here For additional information see the JMV page at the Theoretical and Computational Biophysics Group Virtual Chemistry Lab implemented with VRML, Java3d, XML, with the Sun VRML Loaders 3d VRML Modeling with Animation on Linux ( Red Hat 7.2 ): 7 instances of my Java3d VRML Viewer program Your browser is not configured to run Java ! Gallium Arsenide Crystal ( Java enabled browser required ) Gallium Arsenide Crystal VRML Model : molecule_GaAs.wrl

150. Molecular Model Sets: Molymod Organic Chemistry, Biochemistry, Stereochemistry, Molymod molecular model sets for organic and AP chemistry, molecular biology, stereochemistry, complex ions, VSEPR theory, orbital hybridization and http://www.indigo.com/models/molymod-molecular-model-sets.html

ezAd.Shown = false; Molymod Molecular Model Sets Home Search All Molecular ... Indigo.com Molymod® Molecular Model Sets M olecular model sets are configured for specific areas of study such as organic chemistry, biochemistry, stereo-chemistry, VSEPR theory, crystal lattices, etc. They include 10 or more types of components and permit building structures specific to those interest areas. Organic Chemistry Student Sets Set 62053 is our best buy and most versatile. It is intended for university level organic and inorganic chemistry and can be augmented for use in VSEPR theory and biochemistry. It can be used to show open, hybrid or semispacefilling representations of molecules. Molymod Components. Org. Chem. Student Sets Click on images for more info. Accessories for 62053 Click on image for more info. P/N Description Qty Unit ($US) U.S.A. ($CA) Canada ($US) Other Molymod, organic chem. set Biochemistry upgrade 62053+62053bio+61024:special Inorganic/organic student set Org./inorg. models, extended Organic-Inorganic Chemistry Teachers' Sets Teacher's Sets Click on images for more info.

151. Organic Chemistry, Biochemistry, Crystal Lattice Molecule Models For Ball And St Cochranes of Oxford orbit and minit molecular model sets for organic, inorganic, organometallic chemistry, crystal lattice structures and biochemistry for http://www.indigo.com/models/orbit-molecular-model-sets.html

ezAd.Shown = false; Orbit Molecular Model Sets Home Search All Models DNA Models ... Indigo.com Orbit Molecular Model Sets Orbit molecular model sets are well suited for studies in organic chemistry, biochemistry and lattices. All sets except Foundation include our versatile "wobbly"™ bonds. Included instructions are not meant to replace textbooks. The scale using "wobbly"™ bonds is 20mm =100pm (1Å); with straw bonds, the scale is 30mm =100pm (1Å) Organic Inorganic Chemistry Sets The Foundation set is for basic structures: alkanes; chiral centers; simple carbonyls; enantiomers-isomers; ring structures; aromatics; polymers; carbohydrates, etc. Advanced sets make diamond, all 4 isomers of C H Class model sets Foundation (basic) Organic Chemistry Now w/orbitals for VSEPR! (click on images for info) Orbit Advanced Organic Inorganic Chem. Sets <-Student Class-> (click on images for info) P/N Description Qty Unit ($US) U.S.A. ($CA) Canada ($US) Other Foundation Molecular Model Set Orbit Chemistry Model Set Orbit Chem. Class Model Set

152. Molecular Modelling Resources Resources relating to molecular Modelling, including Journals, Software and General Resources. http://home.nas.net/~dbc/cic_hamilton/mol.html

Agricultural Chemistry Analytical Chemistry Biochemistry Chemical Education ... The Molecular Modelling Database A compilation of all the Brookhaven Protein DataBank 3-dimensional structures of biomolecules from crystallographic and NMR studies. Journal of Molecular Structure Published by Elsevier Science Journal of Molecular Graphics Published in Association with the Molecular Graphics Modelling Society Journal of Molecular Modelling Journal of Molecular Modelling Journal of Computer-Aided Molecular Design Theochem Journal of Molecular Structure Theory and Modelling Journal of Inclusion Phenomena and Molecular Recognition in Chemistry Molecular Simulation Atlas of Side-Chain and Main-Chain Hydrogen Bonding ... Students Access Molecular Structures and Modelling Presented by: The Royal Netherlands Chemical Society and CAOS/CAMM Center Biomolecular Modelling Laboratory Imperial Cancer Research Fund Biomolecular Structure and Modelling Group University College London Molecular Dynamics Laboratory Griffith University Computational Centre for Molecular Structure and Design University of Georgia Computer Simulation in Chemical Engineering University of Amsterdam Molecualr Modelling Institute for Organic Chemistry Technical University Graz Molecular Modelling University of Joensuu Molecular Modelling Group University of Bath Molecular Structures and Biocomputing 3D Molecular Models Workshop A program that is designed for the teaching and learning of organic chemistry

153. NANOMAT: Molecular Modelling In Nanotechnology The NANOMAT program molecular Modelling in Nanotechnology is funded for the period One main goal is to develop molecular modelling tools to be used on a http://phys.chem.ntnu.no/users/aastrand/nanomat/

Molecular Modelling in Nanotechnology The NANOMAT program Molecular Modelling in Nanotechnology is funded for the period 1.7.2003-31.12.2006 by the Norwegian Research Council ( NFR ). The program consists presently of the following partners: www Prof. Trygve Helgaker, Department of Chemistry, University of Oslo ( www Assoc. Prof. Vidar R. Jensen, Department of Chemistry, University of Bergen ( www www www ). (Coordinator) The main objective of the program is to develop and apply novel molecular modelling tools in nanoscience and nanotechnology. This will be achieved by relying on existing competences in theoretical chemistry as a collaboration between the four Norwegian universities. One main goal is to develop molecular modelling tools to be used on a regular basis in the design of primarily carbon-based functional materials. Three subprojects are currently supported: Metal atoms in carbon nanostructures: application to catalysis Molecule-based magnets Non-linear optics of molecular materials Three Ph. D. studentships and two postdoctoral positions are funded by the program. So far, the following persons have started: Dr. Gaetan Weck, NTNU, Trondheim (

154. Search Results In The Bio Netbook [ Molecular Modelling, Cristallography] L Institut Pasteur est un centre de recherche en biologie. http://www.pasteur.fr/cgi-bin/biology/bnb_s.pl?bool=et&bio=molecular modelling,

155. Chemdraw Ultra: Molecular Modelling, Structure Drawing, Semi-empirical Calculati Chemdraw ultra molecular modelling software, including Cambridgesoft TM range of products, Chemdraw, Chem3D, Hyperchem. http://www.chemistry-software.com/modelling/13052.htm

Molecular modelling,drawing, molecular mechanics, Semi-empirical calculations, structure display home demo download buy online about us ... How to order (866) 571-1976 toll free Worldwide sales and support Download brochure Receive the latest product news and monthly special offers. Name: Email: Your information is private Molecular Modeling Pro Datasheet 108 KB pdf OS Win Support 30 Days free Prices click here Demo Download The Molecular Modeling Pro program is: a 3-D chemical structure drawing program a physical property estimation program (check out this page for the details) a chemical data base creation program (used with the companion Molecular Analysis Pro program) a molecular graphics modeling tool a reaction/mixture editor a computer slide show maker a batch structure printing program an unsophisticated structural/reaction searching program a program capable of converting connection table formats between MOLfiles and MACROMODEL files Buy online now For local pricing select your location: United Kingdom European Union United States Rest of World Molecular Modeling Pro 399 USD Molecular Modeling Pro, Educational

156. Molecular Visualization Tools The molecular Modelling Toolkit (MMTK) is a program library for molecular MMTK is based on an objectoriented model of molecular systems developed http://www.imm.org/Parts/MolVis.html

Molecular Machine Parts Free Molecular Visualization Tools MIME Types To Visualize a PDB File Four Free Visualization Tools Open Source Molecular Modeling Tools Files with coordinates of atoms in 3-D space are formatted according to chemical MIME types Dr. Drexler has made his molecular machine parts designs available in the form of files that specify the coordinates in three-dimensional space of each atom in the design. Such atomic coordinate files can be formatted in a number of different file types (chemical MIME types). Information about chemical MIME types can be found at: http://chem.leeds.ac.uk/Project/MIME.html http://www.ch.ic.ac.uk/chemime/ The files of Dr. Drexler's designs are in the PDB, or protein data bank, format. This chemical MIME type is often used for large molecules, especially proteins. The Protein Data Bank at Brookhaven National Laboratory currently has nearly 6000 atomic coordinate files, mostly of protein molecules. A Visualization tool is needed to see a molecule from a PDB file To view the structures that are encoded by these atomic coordinate files (which have the extension .pdb), and to be able to manipulate the images to view the molecules from various perspectives, requires a molecular graphics visualization tool. Without a proper tool, the PDB file will be read as a text file that lists each atom and its numerical coordinates in 3-D space.

157. This Link Has Changed!! Look Now At Http//scsg9.unige.ch/fln Francois Savary, savary@sc2a.unige.ch. Group of Professor J. Weber, Department of Physical Chemistry,University of Geneva. 30, quai Ernest Ansermet http://scsg9.unige.ch/eng/toc.html

This link has changed!! Look now at : http://scsg9.unige.ch/fln/eng/toc.html Francois Savary, savary@sc2a.unige.ch Group of Professor J. Weber, Department of Physical Chemistry,University of Geneva 30, quai Ernest Ansermet CH-1211 Geneva 4 Switzerland

158. SpringerLink - Publication www.springerlink.com/link.asp?id=100529 http://www.springerlink.com/openurl.asp?genre=journal&issn=1610-2940

159. Deep View (Swiss-PdbViewer) Tutorial http://www.usm.maine.edu/~rhodes/SPVTut/

An alternative is to download the offline version and open individual pages from the folder. Click here to obtain the offline version. Use Zipit or Stuffit Expander with Dropstuff/Expander Enhancer (Mac), or Winzip (Windows) to open the archive. Then open the file SPdbVTut.html with your browser and proceed.

160. RasMol Tutorial http://www.usm.maine.edu/~rhodes/RasTut/

Click here to view an older version of this tutorial without frames. At the end of each section, click the link for the next section.

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