ÿþ<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd"> <html> <head> <link href="style.css" rel="stylesheet"> <title>John Mitchell Group Server - Protein & Protein/Ligand databases online</title> </head> <body> <div id="container"> <div id="top"> <a href="http://www.sulsa.ac.uk/"><img src="Pictures/sulsa-logo.png" height="64" border="0"></a> <a href="http://www.st-andrews.ac.uk/"><img src="Pictures/crest.gif" height="64" border="0"></a> <h1><a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/index.html">John Mitchell Group</a></h1> </div> <div id="topnav"> <ul id="navlist"> <li><a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/index.html">Home</a></li> <li><a href="https://risweb.st-andrews.ac.uk/portal/en/persons/john-b-o-mitchell(c4b1f976-2424-4f99-96aa-c5a1df99dd68).html">Research</a></li> <li><a href="http://www-mitchell.ch.cam.ac.uk/members.html">Members</a></li> <li><a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/publications-group.html">Publications</a></li> <li><a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/material.html">Resources</a></li> <li><a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/links.html">Links</a></li> <li><a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/contact.html">Contact</a></li> </ul> </div> <div id="content"> <h2>Protein/Ligand databases online</h2> <p>The table below provides a list of some of the current protein & protein / ligand databases available.</p> <table width="100%" border="1" cellspacing="4" height="80%" align="center"> <tr> <td height="30" width="23%"> <h4 align="center"><font face="Arial, Helvetica, sans-serif">Database Name </font></h4> </td> <td height="30" width="37%"> <h4 align="center"><font face="Arial, Helvetica, sans-serif">Content</font></h4> </td> <td height="30" width="40%"> <h4 align="center"><font face="Arial, Helvetica, sans-serif">World Wide Web Address</font></h4> </td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://www.ebi.ac.uk/thornton-srv/databases/MACiE/">MACiE</a></font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Enzyme reaction mechanisms </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://www.ebi.ac.uk/thornton-srv/databases/MACiE/">http://www.ebi.ac.uk/thornton-srv/databases/MACiE/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://mbs.cbrc.jp/EzCatDB/"target="_blank">EzCatDB</a></font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Enzymes </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://mbs.cbrc.jp/EzCatDB/"target="_blank">http://mbs.cbrc.jp/EzCatDB/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://sfld.rbvi.ucsf.edu/"_blank">SFLD</a></font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Enzyme structure & function </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://sfld.rbvi.ucsf.edu/"target="_blank">http://sfld.rbvi.ucsf.edu/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/PLD.xls"target="_blank">PLD</a></font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein ligand interaction data </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://chemistry.st-andrews.ac.uk/staff/jbom/group/PLD.xls"target="_blank">http://chemistry.st-andrews.ac.uk/staff/jbom/group/PLD.xls</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.rcsb.org/pdb/Welcome.do"target="_blank">PDB</a></font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein structural data </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.rcsb.org/pdb/Welcome.do"target="_blank">http://www.rcsb.org/pdb/Welcome.do</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.ccdc.cam.ac.uk/"target="_blank">CSD</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Molecule structural data</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.ccdc.cam.ac.uk/"target="_blank">http://www.ccdc.cam.ac.uk/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.biochem.ucl.ac.uk/bsm/pdbsum/index.html"target="_blank">PDBSum</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Summarises PDB files</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.biochem.ucl.ac.uk/bsm/pdbsum/index.html"target="_blank">http://www.biochem.ucl.ac.uk/bsm/pdbsum/index.html</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.biochem.ucl.ac.uk/bsm/cath_new/index.html"target="_blank">CATH</a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Classification of protein structural domains</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.biochem.ucl.ac.uk/bsm/cath_new/index.html"target="_blank">http://www.biochem.ucl.ac.uk/bsm/cath_new/index.html</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://scop.mrc-lmb.cam.ac.uk/scop/"target="_blank">SCOP</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Structural classification of proteins </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://scop.mrc-lmb.cam.ac.uk/scop/"target="_blank">http://scop.mrc-lmb.cam.ac.uk/scop/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.expasy.ch/sprot/sprot-top.html">SWISS-PROT &amp; Tr-EMBL </a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein sequence database </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.expasy.ch/sprot/sprot-top.html"target="_blank">http://www.expasy.ch/sprot/sprot-top.html</a></font></td> </tr> <tr> <td width="23%" height="18"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.ncbi.nlm.nih.gov/Genbank/GenbankOverview.html"target="_blank">GenBank </a><br> </font></td> <td width="37%" height="18"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Genetic sequence database </font></div> </td> <td width="40%" height="18"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.ncbi.nlm.nih.gov/Genbank/GenbankOverview.html"target="_blank">http://www.ncbi.nlm.nih.gov/Genbank/GenbankOverview.html</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.sanger.ac.uk/Software/Pfam/"target="_blank">Pfam </a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein domains</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.sanger.ac.uk/Software/Pfam/"target="_blank">http://www.sanger.ac.uk/Software/Pfam/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.sander.ebi.ac.uk/hssp/"target="_blank">HSSP</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Homology derived protein structures</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.sander.ebi.ac.uk/hssp/"target="_blank">http://www.sander.ebi.ac.uk/hssp/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://blocks.fhcrc.org/"target="_blank">BLOCKS </a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein domains</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://blocks.fhcrc.org/"target="_blank">http:/blocks.fhcrc.org/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://bioinf.man.ac.uk/dbbrowser/PRINTS/"target="_blank">PRINTS</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein fingerprints (group of conserved motifs indicative of protein family)</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://bioinf.man.ac.uk/dbbrowser/PRINTS/"target="_blank">http://bioinf.man.ac.uk/dbbrowser/PRINTS/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://pir.georgetown.edu/"target="_blank">PIR</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein sequence</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://pir.georgetown.edu/"target="_blank">http://pir.georgetown.edu/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.genome.ad.jp/kegg/kegg2.html"target="_blank">KEGG </a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Metabolic pathway</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.genome.ad.jp/kegg/kegg2.html"target="_blank">http://www.genome.ad.jp/kegg/kegg2.html</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.genome.ad.jp/ligand/"target="_blank">LIGAND</a> <br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Chemical compounds and reactions in biological pathways database</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.genome.ad.jp/ligand/"target="_blank">http://www.genome.ad.jp/ligand/</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.chem.ac.ru/Chemistry/Databases/CSNDB.en.html"target="_blank">CSNDB</a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Human signalling pathways database </font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.chem.ac.ru/Chemistry/Databases/CSNDB.en.html"target="_blank">http://www.chem.ac.ru/Chemistry/Databases/CSNDB.en.html</a></font></td> </tr> <tr> <td width="23%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://dip.doe-mbi.ucla.edu/"target="_blank">DIP </a><br> </font></td> <td width="37%"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Protein interaction database</font></div> </td> <td width="40%"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://dip.doe-mbi.ucla.edu/"target="_blank">http://dip.doe-mbi.ucla.edu/</a></font></td> </tr> <tr> <td width="23%" height="21"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.bind.ca/"target="_blank">BIND </a><br> </font></td> <td width="37%" height="21"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">Biological interaction database </font></div> </td> <td width="40%" height="21"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.bind.ca/"target="_blank">http://www.bind.ca/</a></font></td> </tr> <tr> <td width="23%" height="21"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://biodata.mshri.on.ca/grid"target="_blank">GRID </a><br> </font></td> <td width="37%" height="21"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099">General Repository for Interaction Datasets </font></div> </td> <td width="40%" height="21"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://biodata.mshri.on.ca/grid"target="_blank"> http://biodata.mshri.on.ca/grid </a></font></td> </tr> <tr> <td width="23%" height="21"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"><a href="http://www.bindingdb.org/bind/index.jsp"target="_blank">Binding Database </a><br> </font></td> <td width="37%" height="21"> <div align="left"><font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> Measured binding affinities of biomolecules and synthetic compounds </font></div> </td> <td width="40%" height="21"> <font size="2" face="Arial, Helvetica, sans-serif" color="#000099"> <a href="http://www.bindingdb.org/bind/index.jsp"target="_blank"> http://www.bindingdb.org/bind/index.jsp </a></font></td> </tr> </table> </div> <div id="footer"> <p>Last updated: 28/9/2011 - <a href="mailto:jbom&#64;st-andrews.ac.uk">jbom&#64;st-andrews.ac.uk</a></p> </div> </div> </body> 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