Extractions: 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 @ 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
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
Extractions: 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.
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/
Extractions: 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) 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)
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
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
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/
Extractions: 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 The NIH Guide to Molecular Modelling is a comprehensive introduction to computational chemistry. 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 The Cambridge Structural Data Base Web manual , contact Staffan Sundell for information on how to access the CSD software.
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
Extractions: BUBL LINK Catalogue of Internet Resources Home Search Subject Menus Countries ... Z 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 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. Resource type: guide 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.
Extractions: 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
Extractions: 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.
Extractions: 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.
Molecular Modelling Resources Resources relating to molecular Modelling, including Journals, Software and General Resources. http://home.nas.net/~dbc/cic_hamilton/mol.html
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/
Extractions: 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:
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
Extractions: Molecular Machine Parts Free Molecular Visualization Tools 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: 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. 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.
Extractions: 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.
