https://wiki.uni-konstanz.de/ccp4/api.php?action=feedcontributions&feedformat=atom&user=Bhuether 2026-04-16T23:11:46Z User contributions MediaWiki 1.43.8 https://wiki.uni-konstanz.de/ccp4/index.php?title=Servers_and_programs_for_sequence_analysis&diff=251 2008-02-14T14:26:01Z

<p>Bhuether: /* Multiple Sequence Alignment */</p> <hr /> <div>====Characterisation====<br /> :* [http://www.sanger.ac.uk/Software/Pfam/ Pfam]<br /> :* [http://www.expasy.org/tools/protparam.html ExPASy ProtParam] Reports basic properties of a protein incl. reisdue composition, molecular weight, and predicted extinction coefficients.<br /> :* [http://smart.embl-heidelberg.de/ SMART] Domain Architecture<br /> :* [http://www.ch.embnet.org/index.html EMBNet Tools]<br /> :* [http://nihserver.mbi.ucla.edu/SER/ SERp] Surface Entropy Reduction Prediction Server for designing surface (lysine) mutations<br /> <br /> ====Disorder prediction====<br /> :* [http://dis.embl.de/ DisEMBL 1.3] Predictors of protein disorder<br /> :* [http://bioinf.cs.ucl.ac.uk/disopred/disopred.html DISOPRED] Prediction of Protein Disorder Server<br /> :* [http://www.disprot.org/ DisProt] Database of Protein Disorder<br /> :* [http://bip.weizmann.ac.il/fldbin/findex FoldIndex]<br /> :* [http://globplot.embl.de/ GlobPlot 2.0] Predictor of disorder-globularity-domains<br /> :* [http://www.pondr.com/ PONDR] Predictor of Natural Disordered Regions<br /> :* [http://www.strubi.ox.ac.uk/RONN RONN (OPPF)]<br /> :* [http://www.bioinformatics.nl/~berndb/ronn.html RONN for multiple alignments]<br /> <br /> ====Multiple Sequence Alignment====<br /> :* [http://www.ebi.ac.uk/clustalw/ Clustalw] General purpose multiple sequence alignment @ EBI<br /> :* [http://espript.ibcp.fr/ESPript/ESPript/ ESPript] Generate &quot;pretty&quot; Postscript/PDF output from Multalin<br /> :* [http://xray.bmc.uu.se/dennis/ Indonesia] Java structure-based sequence alignment<br /> :* [http://www.jalview.org/download.html Jalview] Java tool for MSA viewing, analysis and creation of publication-quality plots. Can run Clustalw, MAFFT and MUSCLE alignments.<br /> :* [http://www.ebi.ac.uk/muscle/ MUSCLE] Multiple sequence comparison by log-expectation @ EBI<br /> :* [http://www.ebi.ac.uk/mafft/ MAFFT] Multiple sequence alignment and NJ / UPGMA phylogeny @ EBI<br /> :* [http://bioinfo.genopole-toulouse.prd.fr/multalin/multalin.html Multalin] Multiple sequence alignment with hierarchical clustering<br /> :* [http://igs-server.cnrs-mrs.fr/Tcoffee/tcoffee_cgi/index.cgi Tcoffee] A novel method for multiple sequence alignments. 3DCoffee mode performs structure-based sequence alignments<br /> :* [http://ca.expasy.org/tools/scanprosite/ PROSITE] Motif Scan and alignment</div>

Bhuether https://wiki.uni-konstanz.de/ccp4/index.php?title=Servers_and_programs_for_sequence_analysis&diff=250 2008-02-14T14:25:46Z

<p>Bhuether: /* Multiple Sequence Alignment */</p> <hr /> <div>====Characterisation====<br /> :* [http://www.sanger.ac.uk/Software/Pfam/ Pfam]<br /> :* [http://www.expasy.org/tools/protparam.html ExPASy ProtParam] Reports basic properties of a protein incl. reisdue composition, molecular weight, and predicted extinction coefficients.<br /> :* [http://smart.embl-heidelberg.de/ SMART] Domain Architecture<br /> :* [http://www.ch.embnet.org/index.html EMBNet Tools]<br /> :* [http://nihserver.mbi.ucla.edu/SER/ SERp] Surface Entropy Reduction Prediction Server for designing surface (lysine) mutations<br /> <br /> ====Disorder prediction====<br /> :* [http://dis.embl.de/ DisEMBL 1.3] Predictors of protein disorder<br /> :* [http://bioinf.cs.ucl.ac.uk/disopred/disopred.html DISOPRED] Prediction of Protein Disorder Server<br /> :* [http://www.disprot.org/ DisProt] Database of Protein Disorder<br /> :* [http://bip.weizmann.ac.il/fldbin/findex FoldIndex]<br /> :* [http://globplot.embl.de/ GlobPlot 2.0] Predictor of disorder-globularity-domains<br /> :* [http://www.pondr.com/ PONDR] Predictor of Natural Disordered Regions<br /> :* [http://www.strubi.ox.ac.uk/RONN RONN (OPPF)]<br /> :* [http://www.bioinformatics.nl/~berndb/ronn.html RONN for multiple alignments]<br /> <br /> ====Multiple Sequence Alignment====<br /> :* [http://www.ebi.ac.uk/clustalw/ Clustalw] General purpose multiple sequence alignment @ EBI<br /> :* [http://espript.ibcp.fr/ESPript/ESPript/ ESPript] Generate &quot;pretty&quot; Postscript/PDF output from Multalin<br /> :* [http://xray.bmc.uu.se/dennis/ Indonesia] Java structure-based sequence alignment<br /> :* [http://www.jalview.org/download.html Jalview] Java tool for MSA viewing, analysis and creation of publication-quality plots. Can run Clustalw, MAFFT and MUSCLE alignments.<br /> :* [http://www.ebi.ac.uk/muscle/ MUSCLE] Multiple sequence comparison by log-expectation @ EBI<br /> :* [http://www.ebi.ac.uk/mafft/ MAFFT] Multiple sequence alignment and NJ / UPGMA phylogeny @ EBI<br /> :* [http://bioinfo.genopole-toulouse.prd.fr/multalin/multalin.html Multalin] Multiple sequence alignment with hierarchical clustering<br /> :* [http://igs-server.cnrs-mrs.fr/Tcoffee/tcoffee_cgi/index.cgi Tcoffee] A novel method for multiple sequence alignments. 3DCoffee mode performs structure-based sequence alignments<br /> :* [http://ca.expasy.org/tools/scanprosite/] Motif Scan and alignment</div>

Bhuether