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Nuclear Magnetic Resonance (NMR) Links Expression Systems and Purification Expression Systems and Purification [top] The American Type Cutting Collection http://www.atcc.org - A source for cultures--cell lines, microorganisms, and viruses. Invitrogen http://www.invitrogen.com - Wide range of expression solutions. Dartmouth College Comprehensive Protocol Collection http://www.dartmouth.edu/artsci/bio/ambros/protocols/molbio.html - Molecular biology protocols. Novagen http://www.novagen.com/- Restriction enzymes, protein expression vectors, and protocols. New England Biolabs http://www.neb.com - Restriction enzymes, protein expression vectors, and protocols. Amersham Pharmacia http://www1.amershambiosciences.com/Aptrix/upp01077.nsf/Content/homepage_country_select - Protein purification materials and protocols. PerSeptive Biosystems http://home.appliedbiosystems.com/ - Protein purification materials and protocols. Part of the Applied Biosystems family of companies. Bio-Rad Laboratories http://www.bio-rad.com - Protein purification materials and protocols. ExPASy http://www.expasy.ch - Analysis of protein sequences and structures. Isotopes and Labeling [top] Isotec Inc. http://www.isotechlabs.com/ - Stable isotope supplier. Martek Biosciences Corporation http://www.martekbio.com - Stable isotope supplier. SciQuest http://www.sciquest.com - Isotope supplier allowing online ordering. Sigma-Aldrich http://www.sigma-aldrich.com - Isotope supplier allowing online ordering. National Stable Isotope Resource at Los Alamos http://sir.lanl.gov/ - Offers training in the synthesis of stable isotopes, as well as distribution of compounds to accredited investigators. NMR Theory and Tutorials [top] Auditory Presentation of Free Induction Decay (FID) Signals Generated by NMR Spectrometers http://www.organik.uni-erlangen.de/research/NMR/music.html - NMR meets musicians. The Basics of NMR http://www.cis.rit.edu/htbooks/nmr - Excellent overview of NMR. QChemistry http://web.chem.queensu.ca/FACILITIES/NMR/nmr/webcourse/index1.htm - Advanced NMR course utilizing macromedia shockwave. spectroscopyNOW http://www.spectroscopynow.com/Spy/basehtml/SpyH/1,1657,5-14-9-0-9-education_list-0-0,00.html - More advanced aspects of NMR. WebElements http://www.webelements.com - NMR information as well as an interactive periodic table. Virtual NMR Laboratories [top] Pacific Northwest National Laboratory's Environmental Molecular Sciences Laboratory (EMSL) http://www.emsl.pnl.gov/ - Provides a number of tools that can be run remotely from across the globe. NMR Pulse Sequences [top] EMBL Heidelberg http://www.nmr.EMBL-Heidelberg.DE/sattler/PP/pulseprograms.html - Triple resonance pulse programs for 13C, 15N labeled proteins. Ecole Normale Superieure http://www.ens-lyon.fr/STIM/NMR/library/ - Pulse programs. Varian NMR Corporate site http://www.varianinc.com - Large array of multidimensional pulse programs. Varian Pulse Sequence Distribution http://abragam.med.utoronto.ca/sequences.html - Pulse sequences developed by the Toronto NMR Group of Lewis Kay. NMR Relaxation [top] ModelFree http://cpmcnet.columbia.edu/dept/gsas/biochem/labs/palmer/software/modelfree.html - A program for optimizing "Lipari-Szabo model free" parameters to heteronuclear relaxation data. IRMA http://www.nmr.chem.uu.nl/new/ - Calculates distances from experimental NOE spectra with the use of the full relaxation matrix approach. CORMA/MARDIGRAS http://picasso.nmr.ucsf.edu/New/download.html - Matrix Analysis of Relaxation for Discerning the Geometry of an Aqueous Structure. MORASS/GRASP http://www.nmr.utmb.edu/#mrass - Multiple Overhauser Relaxation Analysis and Simulation. NMR Processing and Display Software [top] ANSIG http://www-ccmr-nmr.bioc.cam.ac.uk/public/ANSIG/ansig.html - Program for viewing and assigning 2D, 3D and 4D NMR spectra (both homonuclear and heteronuclear) of biological macromolecules. NMRPipe http://spin.niddk.nih.gov/bax/software/NMRPipe/index.html - Provides comprehensive facilities for Fourier processing of spectra in one to four dimensions, as well as a variety of facilities for spectral display and analysis. Sparky http://www.cgl.ucsf.edu/home/sparky/ - Sparky is a graphical NMR assignment and integration program for proteins, nucleic acids, and other polymers. SWAN-MR http://qobrue.usc.es/jsgroup/swan/index.html - Processing software with the ambition of teaching NMR. XEASY http://www.mol.biol.ethz.ch/wuthrich/software/xeasy/ - ETH Automated Spectroscopy for X Window Systems. Pronto 3D2 http://mail.crc.dk/chem/pronto - Analyzes multidimensional spectra and displays 3D protein structures. Structure Calculations [top] NIH Center of Molecular Modeling http://cmm.info.nih.gov/modeling/tutorials.html - Structure calculations tutorials. Amber http://amber.scripps.edu/ - A set of molecular mechanical force fields for the simulation of biomolecules (which are in the public domain, and are used in a variety of simulation programs); and a package of molecular simulation programs which includes source code and demos. CYANA http://www.guentert.com/ - A program for the structure calculation of biological macromolecules on the basis of conformational constraints from NMR GROMOS http://igc.ethz.ch/gromos/gromos.html - A general-purpose molecular dynamics computer simulation package for the study of biomolecular systems. ARIA and XPLOR http://www.pasteur.fr/recherche/unites/Binfs/ - ARIA is a software for automated NOE assignment and NMR structure calculation. X-PLOR's main focus is the three-dimensional structure determination of macromolecules using crystallographic diffraction or nuclear magnetic resonance (NMR) data. Crystallography & NMR System (CNS) http://cns.csb.yale.edu/v1.0 - Includes heavy atom searching, experimental phasing (including MAD and MIR), density modification, crystallographic refinement with maximum likelihood targets, and NMR structure calculation using NOEs, J-coupling, chemical shift, and dipolar coupling data. Molecular Graphics [top] MOLecule Analysis and MOLecule Display (MOLMOL) http://www.mol.biol.ethz.ch/wuthrich/software/molmol - A molecular graphics program for displaying, analyzing, and manipulating the three-dimensional structure of biological macromolecules, with special emphasis on the study of protein or DNA structures determined by NMR. Molscript http://www.avatar.se/molscript/molscript.html - A program for displaying molecular 3D structures, such as proteins, in both schematic and detailed representations. PDB3D http://www.doe-mbi.ucla.edu/Services/PDB3D - PDB3D is a high speed 3D molecule rendering applet which has been designed specifically for viewing Brookhaven Protein Database (.pdb) format molecular structure files within web pages. VRML browser/plugins http://www.chm.davidson.edu/VRML/pdb2vrml.html - Converts molecular structure information stored in a Brookhaven Protein Database file (.pdb) into a VRML world file (.wrl). MidasPlus http://www.cgl.ucsf.edu/Outreach/midasplus/ - An advanced molecular modeling system. Protein Explorer http://www.umass.edu/microbio/rasmol - Protein Explorer, a RasMol-derivative, is an easy and powerful software for looking at macromolecular structure and its relation to function. Chime http://www.mdli.com/cgi/dynamic/downloadsect.html?uid=$uid&key=$key&id=1 - A software plug-in that enables viewing of chemical structures in a browser window. Nucleic Acids Structure [top] RNA World http://www.imb-jena.de/RNA.html - Lists Internet links on RNA related topics. Nucleic Acid Database Project (NDB) http://ndbserver.rutgers.edu/NDB/general/index.html - The NDB processes data for the crystal structures of nucleic acids. Curves http://www.ibpc.fr/UPR9080/Curindex.html - An algorithm for calculating a helical parameter description for any irregular nucleic acid segment with respect to an optimal, global helical axis. Rnadraw http://iubio.bio.indiana.edu/soft/molbio/ibmpc/rnadraw-readme.html - An integrated program for RNA secondary structure calculation and analysis under 32-bit Microsoft Windows European ribosomal RNA database http://oberon.fvms.ugent.be:8080/rRNA/index.html - Compiles all complete or nearly complete SSU (small subunit) and LSU (large subunit) ribosomal RNA sequences. Protein Structure Analysis and Validation [top] UCLA-DOE http://www.doe-mbi.ucla.edu/Services - Offers several programs to calculate NMR structures. Biotech Validation Suite for Protein Structures http://biotech.ebi.ac.uk:8400/ - Offers several programs to calculate NMR structures. Online Database of Ensemble Representatives and Domains (OLDERADO) http://neon.chem.le.ac.uk/olderado - Provides the programs, nmrclust and nmrcore, to cluster structures and determine core atoms. Database of Macromolecular Movements http://bioinfo.mbb.yale.edu/MolMovDB - A collection of macromolecule animations. SHIFTY http://redpoll.pharmacy.ualberta.ca/shifty/ - Automated protein chemical shift prediction. University of Sheffield Biological NMR Group http://www.shef.ac.uk/uni/projects/nmr/home.html - Provides programs for the calculation of 13C proton chemical shift. NMR Conferences [top] Experimental Nuclear Magnetic Resonance Conference (ENC) http://www.enc-conference.org European ENC http://www.fiz.uni-lj.si/~eenc98/eenccomm.htm Gordon Research Conferences http://www.grc.uri.edu Keystone Symposium in Structural biology and NMR methodology http://www.keystonesymposia.org/ NMR Directories [top] Open Directory Project http://dmoz.org/Science/Chemistry/Nuclear_Magnetic_Resonance - NMR links. spectroscopyNOW http://www.spectroscopynow.com - Online resource serving the spectroscopy community. The World-Wide Web NMR Spectrometer http://micro.ifas.ufl.edu Nuclear and Electron Magnetic Resonance Spectroscopy and Imaging http://huweb.hu.liu.se/inst/imv/radiofysik/info/edunmrsoft.html - NMR and ESR software suitable for simulating spectrometers and spectra, processing NMR data, and illustrating various concepts. BioMagResBank http://www.bmrb.wisc.edu - A repository of data from NMR spectroscopy on proteins, peptides, and nucleic acids. |
