View source for Part 1: Molecular Biology Search and Analysis

<strong>[[3D-ALI]]</strong> - Database relating Proteins Structures and Sequences (see <a href="gopher://s-crim1.dl.ac.uk/00/EMBnet%20Bioinformation%20Resource%20UK/Data%20%26%20Software/databases/3d_ali/3d_ali.doc"><strong>Documentation</strong></a>) at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
&nbsp;<a href="http://www.embl-heidelberg.de/aaa.html"><strong>AA Analysis</strong>&nbsp;</a> - Protein Identification in SwissProt and PIR using Amino Acid Composition at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp;&nbsp;<br />
&nbsp;<a href="http://expasy.hcuge.ch/ch2d/aacompi.html"><strong>AA CompIdent</strong></a> - Protein Identification in SwissProt using Amino Acid Composition at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp;&nbsp;<br />
&nbsp;<a href="http://expasy.hcuge.ch/ch2d/aacsim.html"><strong>AA CompSim</strong></a> - Compare the Amino Acid Composition of a SwissProt Entry with Other Entries at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp;&nbsp;<br />
&nbsp;<a href="http://chait-sgi.rockefeller.edu/cgi-bin/sequence/AA"><strong>AA Sequence Analysis</strong></a> - Multiple Analysis of a Native or Modified Amino Acid Sequence at <a href="http://www.rockefeller.edu/ru.home.html">Rockefeller U.</a>&nbsp;&nbsp;<br />
&nbsp;<a href="http://www.biochem.ucl.ac.uk/~martin/abs/seqtest.html"><strong>AbCheck</strong></a> - Test an Antibody Sequence Against the Kabat Database at <a href="http://www.biochem.ucl.ac.uk/">U. College-London</a>, UK&nbsp;&nbsp;<br />
&nbsp;<a href="http://genome.eerie.fr/fasta/align-query.html"><strong>ALIGN</strong></a> - Optimal Global Alignment of Two Sequences with No Short-cuts at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France and <a href="http://speedy.mips.biochem.mpg.de/www/programs/align.html"><strong>Align</strong></a> at <a href="http://speedy.mips.biochem.mpg.de/">MIPS</a>, Germany&nbsp;&nbsp;<br />
&nbsp;<a href="http://cbrg.inf.ethz.ch/subsection3_1_1.html"><strong>AllAll</strong></a> - Relationships in a Set of Related Peptides at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp;&nbsp;<br />
&nbsp;<a href="http://cbrg.inf.ethz.ch/subsection3_1_2.html"><strong>AllAllDB</strong></a> - Search the All-Against-All Database of SwissProt at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp;&nbsp;<br />
&nbsp;<a href="http://geoff.biop.ox.ac.uk/servers/amas_server.html"><strong>AMAS</strong></a> - Analysis of Protein Multiple Sequence Alignments at <a href="http://geoff.biop.ox.ac.uk/">U. Oxford</a>, UK&nbsp;&nbsp;<br />
&nbsp;<a href="http://www.embl-heidelberg.de/argos/ASC.21/asc2.html"><strong>ASC</strong></a> - Analytic Surface Calculation of PDB Protein Structures at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp;&nbsp;<br />
&nbsp;<a href="http://mips11.mips.biochem.mpg.de/www/programs/atlas_per.html"><strong>ATLAS</strong></a> - Search DNA and Protein Sequence Databases at <a href="http://speedy.mips.biochem.mpg.de/">MIPS</a>, Germany&nbsp;&nbsp;<br />
&nbsp;<a href="http://kiwi.imgen.bcm.tmc.edu:8088/search-launcher/launcher.html"><strong>BCM Search Launcher</strong></a> at&nbsp;<br />
<a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src=">&nbsp;</a><a href="http://dot.imgen.bcm.tmc.edu:9331/seq-search/protein-search.html"><strong>BEAUTY</strong></a> - BLAST Enhanced Alignment Utility <a href="http://dot.imgen.bcm.tmc.edu:9331/seq-search/Help/beauty.html"><strong>(see Documentation)</strong></a> at <a href="http://www.bcm.tmc.edu/">Baylor College of Medicine</a>&nbsp; <br />
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&nbsp;<a href="http://cammsg3.caos.kun.nl:8000/srs/srsc?-info+BERLIN"><strong>BERLIN</strong></a> - RNA Databank of 5S rRNA and 5S rRNA Gene Sequences at <a href="http://cammsg3.caos.kun.nl:8000/">CAOS/CAMM</a>, The Netherlands&nbsp; <br />
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&nbsp;<a href="http://sgbcd.weizmann.ac.il/Bic/ExecAppl.html"><strong>BIOACCELERATOR</strong></a> at <a href="http://bioinformatics.weizmann.ac.il:70/">Weizmann Institute of Science</a>, Israel&nbsp; <br />
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&nbsp;<a alt="!New!" images="" href="http://www.ocms.ox.ac.uk/~birney/cusi/biocusi.html%3E%3Cb%3EbioCUSI%3C/b%3E%3C/a%3E%3Cimg%20src=">- Multiple Access to Biological Servers at </a><a href="http://www.ocms.ox.ac.uk/">OCMS-Oxford</a>&nbsp; <br />
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&nbsp;<a href="ftp://pdb.pdb.bnl.gov/user_group/biological_units"><strong>Biological Units</strong></a> - Expanded PDB Entries with Full Biological Units at <a href="http://suntid.bnl.gov:8080/bnl.html">Brookhaven National Laboratory</a>&nbsp; <br />
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&nbsp;<a href="http://www.ocms.ox.ac.uk/~birney/palette.html"><strong>Biologist's Search Palette</strong></a> - Collection of Search Engines for Biological Databases at <a href="http://www.ocms.ox.ac.uk/">Oxford U.</a>, UK&nbsp; <br />
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<a href="http://www.ncbi.nlm.nih.gov/Recipon/bs_seq.html"><strong>BLAST</strong></a> - Basic Local Alignment Research Tool at <a href="http://www.ncbi.nlm.nih.gov/">NCBI</a>, <a href="http://swarmer.stanford.edu/cgi-bin/blastq-form?options=simple"><strong>BLAST</strong></a> (hiv, vector, etc) at <a href="http://motif.stanford.edu/">Stanford U.</a>,&nbsp;<br />
<a href="http://www.genome.ad.jp/SIT/BLAST.html"><strong>BLAST</strong></a> at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan,&nbsp;<br />
<a href="http://genome.eerie.fr/blast/blast-query.html"><strong>BLAST</strong></a> at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France,&nbsp;<br />
<a href="http://www.crihan.fr/www/blast.html"><strong>BLAST</strong></a> at <a href="http://www.crihan.fr/">CRIHAN</a>, France <a href="http://dot.imgen.bcm.tmc.edu:9331/cgi-bin/seq-search/blast_form_local.pl"><strong>BLAST</strong></a> (with Entrez and SRS Links) at <a href="http://gc.bcm.tmc.edu:8088/">Baylor College of Medicine</a> and&nbsp;<br />
<a href="http://ulrec3.unil.ch/software/EPFLBLAST_form.html"><strong>BLAST</strong></a> at <a href="http://www.epfl.ch/">EPFL</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://dot.imgen.bcm.tmc.edu:9331/seq-search/Option/blastpat.html"><strong>BLASTPAT</strong></a> - BLAST-based Pattern Database Search (see <a href="http://dot.imgen.bcm.tmc.edu:9331/seq-search/Help/blastpat.html"><strong>Documentation</strong></a>) at <a href="http://gc.bcm.tmc.edu:8088/">Baylor College of Medicine</a>&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/searches/blitz_input.html"><strong>BLITZ</strong></a> (see <a href="http://www.ebi.ac.uk/searches/blitz_doc.html"><strong>Documentation</strong></a>) at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a> and <a href="http://www.ebi.ac.uk/searches/blitz_input.html"><strong>BLITZ</strong></a> at <a href="http://www.ebi.ac.uk/">EBI</a>, UK&nbsp; <br />
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&nbsp;<a href="http://www.blocks.fhcrc.org/"><strong>BLOCKS</strong></a> - Database of Highly Conserved Regions in Proteins&nbsp; and <a href="gopher://klaatu.fhcrc.org/77/.indexes/.blocksindex/blocksindex"><strong>BLOCKS-WAIS</strong></a>&nbsp; at <a href="gopher://klaatu.fhcrc.org/">Fred Hutchinson Cancer Research Center</a>,&nbsp;<br />
<a href="http://www.embl-heidelberg.de/srs/srsc?-info||BLOCKS"><strong>BLOCKS</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a> and&nbsp;<br />
<a href="http://www.public.iastate.edu/~pedro/blocks_query.html"><strong>BLOCKS-Search</strong></a> w/ search from <a href="http://www.cc.iastate.edu/welcome.html">Iowa State</a>&nbsp; <br />
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&nbsp;<a href="http://bimas.dcrt.nih.gov/sql/BMRBgate.html"><strong>BioMagResBank</strong></a> - A Database of NMR-Derived Protein Structures at <a href="http://bimas.dcrt.nih.gov/">BIMAS-NIH</a>&nbsp; <br />
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&nbsp;<a href="http://genome.cs.unc.edu/online.html"><strong>BioSCAN</strong></a> - Biological Sequence Comparative Analysis at <a href="http://genome.cs.unc.edu/">U. North Caroline</a>&nbsp; <br />
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&nbsp;<a href="http://ibm4.carb.nist.gov:4400/bmcd/bmcd.html"><strong>BMCD</strong></a> - Biological Macromolecule Crystallization Database at <a href="http://ibm4.carb.nist.gov:4400/carb.html">CARB</a>&nbsp; <br />
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&nbsp;<a href="http://ulrec3.unil.ch/software/BOX_form.html"><strong>BOXSHADE</strong></a> - Pretty Printing and Shading of Multiple-Sequence Alignments at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.biochem.ucl.ac.uk/bsm/cath/CATHintro.html"><strong>CATH</strong></a> - Protein Structure Classification at <a href="http://www.biochem.ucl.ac.uk/">UCL-London</a>, UK&nbsp; <br />
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&nbsp;<a href="http://ibc.wustl.edu/msa/clustal.cgi"><strong>CLUSTALW</strong></a> - Multiply Sequence Alignments at <a href="http://ibc.wustl.edu/">IBC-Washington U.</a>&nbsp; <br />
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&nbsp;<a href="http://alces.med.umn.edu/cuse.html"><strong>Codon Usage</strong></a> - Analysis of Different ORFs in a Gene Sequence at <a href="http://www.umn.edu/">U. Minnesota</a>&nbsp; <br />
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&nbsp;<a href="http://ulrec3.unil.ch/software/COILS_form.html"><strong>Coils</strong></a> - Prediction of Coiled Coil Regions in Protein Sequences at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://ben.vub.ac.be/srs/srsc?-info+CPGISLE"><strong>CpGIsle</strong></a> - CpG Islands Database at <a href="http://ben.vub.ac.be/">BEN</a>, Belgium&nbsp; <br />
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&nbsp;<a href="http://cbrg.inf.ethz.ch/subsection3_1_7.html"><strong>Darwin</strong></a> - Data Analysis and Retrieval With Indexed Nucleotide/Peptide Sequences at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.ncbi.nlm.nih.gov/dbEST/index.html"><strong>dbEST</strong></a> - Database of Expressed Sequence Tags at <a href="http://www.ncbi.nlm.nih.gov/">NCBI</a>&nbsp; <br />
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&nbsp;<a href="http://www.genome.ad.jp/dbget/dbget.html"><strong>DBGET</strong></a> - Integrated Database Retrieval System (w/ <a href="http://www.genome.ad.jp/dbget/dbget.links.html"><strong>diagram links</strong></a>) at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan&nbsp; <br />
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&nbsp;<a href="gopher://gopher.nig.ac.jp/7waissrc%3a/DDBJ_Gopher_WAIS/DNA_seq_index_search.src"><strong>DDBJ</strong></a> - DNA Database of Japan at <a href="http://www.nig.ac.jp/">National Institute of Genetics</a>, Japan&nbsp; <br />
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&nbsp;<a href="http://alces.med.umn.edu/rawdot.html"><strong>Dot Plot</strong></a> - Compare a DNA Sequence with Itself at <a href="http://www.umn.edu/">U. Minnesota</a>&nbsp; <br />
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&nbsp;<a href="http://www.nih.gov/molecular_modeling/drugbank.html"><strong>DrugBank</strong></a> - Three-dimensional Drug Structure Databank at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-info+DSSP"><strong>DSSP</strong></a> - Database of Secondary Structure of Proteins from PDB (see <a href="http://www.sander.embl-heidelberg.de/dssp/descrip.html"><strong>Documentation</strong></a>) at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="http://www.gdb.org/Dan/proteins/ec-enzyme.html"><strong>EC Enzyme</strong></a> at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a> and <a href="http://www.genome.ad.jp/htbin/show_ECtable"><strong>EC Number Table</strong></a> at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan and <a href="http://specter.dcrt.nih.gov:8004/Enzymes/enzymes.html"><strong>GenoBase Enzyme Index</strong></a> at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
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&nbsp;<a href="http://susi.bio.uni-giessen.de/usr/local/www/html/ecdc.html"><strong>ECDC</strong></a> - <em>E. coli</em> Database Collection at <a href="http://www.uni-giessen.de/">Uni-Gie&szlig;en</a>, Germany&nbsp; <br />
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&nbsp;<a href="gopher://biox.embnet.unibas.ch:13021/77/.index/embl/index"><strong>EMBL</strong></a> - Nucleotide Sequence Database and <a href="gopher://biox.embnet.unibas.ch:13021/77/.index/xembl/index"><strong>EMBL-New Entries</strong></a> at <a href="http://www.ch.embnet.org/">EMBnet-Basel</a>&nbsp; <br />
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&nbsp;<a href="http://www.ebi.ac.uk/srs/srsc?-info||EMNEW"><strong>EMNEW</strong></a> - Index of New EMBL Sequences at <a href="http://www.ebi.ac.uk/">EBI</a>, UK&nbsp; <br />
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<a href="http://specter.dcrt.nih.gov:8004/Compound/compound_toc_by_name.html"><strong>EMP Compound</strong></a> and <a href="http://specter.dcrt.nih.gov:8004/Pathway/pathway_toc_by_name.html"><strong>EMP Pathways</strong></a> - Selkov Enzyme and Metabolic Pathway (EMP) Database at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
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&nbsp;<a href="http://www.mcs.anl.gov/home/towell/metabhome.html"><strong>EMP Metabolic Pathways</strong></a> - Navigation in Metabolic Pathways from <a href="http://www.mcs.anl.gov/home/compbio/default.html">MCS-Computational Biology</a> at <a href="http://www.anl.gov/">Argonne National Laboratory</a>&nbsp; <br />
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&nbsp;<a href="http://www.ncbi.nlm.nih.gov/Search/Entrez/index.html"><strong>ENTREZ</strong></a> - Protein and Nucleotide Database (see <a href="http://atlas.nlm.nih.gov:5700/WWW2/WWW2_paper2.html"><strong>Documentation</strong></a>) at <a href="http://www.ncbi.nlm.nih.gov/">NCBI</a>&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/sprot/enzyme.html"><strong>ENZYME</strong></a> - The Enzyme Data Bank at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.biochem.ucl.ac.uk/bsm/enzymes/index.html"><strong>Enzyme Structures Database</strong></a> - Structures of Enzymes Deposited in the PDB at <a href="http://www.biochem.ucl.ac.uk/">UCL-London</a>, UK&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-id||781260221_129.186.4.14||-info||EPD"><strong>EPD</strong></a> - Eucaryotic Promoter Database at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>, Germany and <a href="http://www.genome.ad.jp/htbin/bfind_epd"><strong>EPD</strong></a> at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan&nbsp; <br />
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&nbsp;<a href="http://bioslave.uio.no:8001/srs/srsc?-info+EPO"><strong>EPO</strong></a> - European Patent Office Nucleotide Database at <a href="http://www.no.embnet.org/">BiO/U. Oslo</a>, Norway&nbsp; and <a href="gopher://gopher.csc.fi/7waissrc%3a/tiede/BioBox/bionic/.epo.src"><strong>EPO</strong></a> at <a href="http://www.csc.fi/CSC_english.html">CSC</a>, Finland&nbsp; <br />
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&nbsp;<a href="http://www.ebi.ac.uk/searches/fasta.html"><strong>FASTA</strong></a> - Compare a Nucleic Acid Sequence to Nucleotide Sequence Databases (w/ updates) at <a href="http://www.ebi.ac.uk/">EBI</a>, UK,&nbsp;<br />
<a href="http://swarmer.stanford.edu/cgi-bin/fastaq-form?options=simple"><strong>FASTA</strong></a> (Berlin, Vectorbank, etc) at <a href="http://motif.stanford.edu/">Stanford U.</a>,&nbsp;<a href="http://genome.eerie.fr/fasta/fasta-query.html"><strong><br />
FASTA</strong></a> at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France and&nbsp;<br />
<a href="http://www.crihan.fr/www/fasta.html"><strong>FASTA</strong></a> at <a href="http://www.crihan.fr/">CRIHAN</a>, France&nbsp; <br />
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&nbsp;<a href="http://dot.imgen.bcm.tmc.edu:9331/seq-search/Options/fastpat.html"><strong>FASTPAT</strong></a> - FASTA-based Pattern Database Search (see <a href="http://dot.imgen.bcm.tmc.edu:9331/seq-search/Help/fastpat.html"><strong>Documentation</strong></a>) at <a href="http://gc.bcm.tmc.edu:8088/">Baylor College of Medicine</a>&nbsp; <br />
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&nbsp;<a href="http://morgan.harvard.edu/"><strong>FlyBase</strong></a> - Genetic and Molecular Database for <em>Drosophila</em> at <a href="http://www.harvard.edu/">Harvard U.</a>&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-info||FSSP"><strong>FSSP</strong></a> - Database of Families of Structurally Similar Proteins derived from PDB at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="http://www.abc.hu/blast.html"><strong>FTHOM</strong></a> - Compare Protein Domain Homology at <a href="http://www.abc.hu/">ABC</a>, Hungary&nbsp; <br />
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&nbsp;<a href="http://gdbwww.gdb.org/"><strong>GDB</strong></a> - Human Genome Data Base at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
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&nbsp;<a href="http://ncbi.nlm.nih.gov:2555/r_genbank2.html"><strong>GenBank Database</strong></a> (+Updates) at <a href="http://www.ncbi.nlm.nih.gov/">NCBI</a> and <a href="http://ibc.wustl.edu/wu_fetch.html"><strong>GenBank-Fetch</strong></a> at <a href="http://ibc.wustl.edu/">Washington U.</a>&nbsp; <br />
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&nbsp;<a href="http://dot.imgen.bcm.tmc.edu:9331/gene-finder/gf.html"><strong>Gene Finder</strong></a> - Predict Gene Structure, Internal Exons and Splicing Sites in DNA and Exon-Exon Junstion in cDNA at <a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src="></a><br />
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<a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src=">&nbsp;</a><a href="http://cbil.humgen.upenn.edu/~sdong/genlang_home.html"><strong>GenLang</strong></a> - Find Genes and Other Higher-Order Features in Nucleotide Sequences at <a href="http://cbil.humgen.upenn.edu/">CBIL-U. Pennsylvania</a>&nbsp; <br />
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&nbsp;<a href="http://specter.dcrt.nih.gov:8004/"><strong>GenoBase</strong></a> at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
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&nbsp;<a href="http://genome.eerie.fr/Genome-DBS.html"><strong>Genome Databases</strong></a> and <a href="http://genome.eerie.fr/Genome_Centre.html"><strong>Genome Centers</strong></a> - World Wide Links at <a href="http://genome.eerie.fr/">EERIE-Nimes</a>, France&nbsp; <br />
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&nbsp;<a href="http://www.ri.bbsrc.ac.uk/genome_workstation/workstation.html"><strong>Genome Workstation</strong></a> - Genome Related Links at <a href="http://www.ri.bbsrc.ac.uk/">Roslin Institute</a>, UK&nbsp; <br />
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&nbsp;<a href="http://biotech.chem.indiana.edu/WebChris/maps.html"><strong>Genomic Maps</strong></a> - Links to Genome Specific Resources at <a href="http://biotech.chem.indiana.edu/">Biotech-Indiana</a>&nbsp; <br />
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&nbsp;<a href="http://www.gdb.org/Dan/gq/gq.form.html"><strong>GenQuest</strong></a> - Search Against Protein Databases with the Q server at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
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&nbsp;<a href="http://avalon.epm.ornl.gov/Grail-bin/EmptyGrailForm"><strong>Grail</strong></a> - Analysis of the Protein Coding Potential of a DNA Sequence (see <a href="ftp://arthur.epm.ornl.gov/pub/xgrail/Manual.grail-genquest.July94"><strong>Documentation</strong></a>) at <a href="http://avalon.epm.ornl.gov/">ORNL</a>&nbsp; <br />
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&nbsp;<a href="http://www.ncgr.org/gsdb/"><strong>GSDB</strong></a> - Genome Sequence Database at <a href="http://www.ncgr.org/ncgr/ncgr.html">NCGR</a>&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/www/guess-prot.html"><strong>GuessProt</strong></a> - Selects SwissProt proteins given pI and Mw at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://ibc.wustl.edu/hhs/"><strong>HHS</strong></a> - SwissProt and PDB Systematic Sequence Classification Database at <a href="http://ibc.wustl.edu/">Washington U.</a>&nbsp; <br />
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&nbsp;<a href="http://cammsg3.caos.kun.nl:8000/srs/srsc?-info+HOVERGEN"><strong>HOVERGEN</strong></a> - Database of Homologous Vertebrate Genes at <a href="http://cammsg3.caos.kun.nl:8000/">CAOS/CAMM</a>, The Netherlands&nbsp; <br />
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&nbsp;<a href="http://speedy.mips.biochem.mpg.de/www/programs/hpt_persistent.html"><strong>HPT</strong></a> - Protein Sequence Pattern Recognition in the PIR Database and <a href="http://speedy.mips.biochem.mpg.de/www/programs/hpt_homol.html"><strong>HPT-Homology</strong></a> at <a href="http://speedy.mips.biochem.mpg.de/">MIPS</a>, Germany&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-info||HSSP"><strong>HSSP</strong></a> - Database of Homology-Derived Structures of Proteins based on PDB and SwissProt at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="gopher://gopher.gdb.org/77/.INDEX/kabat"><strong>Kabat </strong></a>- Database of Proteins of Immunological Interest at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
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&nbsp;<a href="http://www.prosci.uci.edu/kinemages/KinemageIndex.html"><strong>Kinemage-Index</strong></a> - &quot;Kinetical Images&quot; by Protein Type at <a href="http://www.prosci.uci.edu/">Protein Science</a>&nbsp; <br />
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&nbsp;<a href="http://ibc.wustl.edu/klotho/"><strong>Klotho</strong></a> - Biochemical Compounds Declarative Database at <a href="http://ibc.wustl.edu/">Washington U.</a>&nbsp; <br />
<br />
&nbsp;<a href="http://genome.eerie.fr/fasta/lalign-query.html"><strong>LALIGN</strong></a> - Calculates the N-Best Local Alignments Between Two Sequences at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France&nbsp; <br />
<br />
&nbsp;<a href="http://genome.eerie.fr/fasta/lfasta-query.html"><strong>LFASTA</strong></a> - Local Similarity Searches Between Two Sequences Showing Local Alignments at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France&nbsp; <br />
<br />
&nbsp;<a href="http://www.genome.ad.jp/htbin/bfind_ligand"><strong>LIGAND</strong></a> - Ligand Chemical Database for Enzyme Reactions at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan&nbsp; <br />
<br />
&nbsp;<a href="gopher://gopher.nih.gov/77/gopherlib/indices/limb/index"><strong>LiMB</strong></a> - Listing of Molecular Biology Databases at <a href="http://www.nih.gov/">NIH</a>&nbsp; and <a href="http://www.embl-heidelberg.de/srs/srsc?-id||777855676_129.186.4.14||-info||LIMB"><strong>LiMB</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://cbrg.inf.ethz.ch/subsection3_1_3.html"><strong>MassSearch</strong></a> - Search SwissProt or EMBL Databases by Protein Mass After Digestion at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://cgsc.biology.yale.edu/metab.html"><strong>Metabolic Database</strong></a> - Metabolic Reactions and Pathways at <a href="http://cgsc.biology.yale.edu/">CGSC-Yale U.</a> and <a href="http://moulon.inra.fr/cgi-bin/nph-acedb3.1/acedb/metabolisme?find+Reaction_or_pathway%3By+14+69"><strong>Metabolic Database</strong></a> at <a href="http://moulon.inra.fr/">INRA-Moulon</a>, France&nbsp; <br />
<br />
&nbsp;<a href="http://www.informatics.jax.org/mgd.html"><strong>MGD</strong></a> - Mouse Genome Database at <a href="http://www.informatics.jax.org/">Jackson Laboratory</a>&nbsp; <br />
<br />
&nbsp;<a href="gopher://wehil.wehi.edu.au/11/MHCPEP.DB"><strong>MHCPEP</strong></a> - Database of Major Histocompatibility Complex (MHC) Binding Peptides at <a href="http://www.wehi.edu.au/">WEHI-Melbourne</a>, Australia&nbsp; <br />
<br />
&nbsp;<a href="http://speedy.mips.biochem.mpg.de/www/programs/hpt_persistent.html"><strong>MIPS-Alert</strong></a> - Automated Sequence Information Queries at <a href="http://speedy.mips.biochem.mpg.de/">MIPS</a>, Germany&nbsp; <br />
<br />
&nbsp;<a href="http://www.nih.gov/htbin/pdb"><strong>Molecules R US</strong></a> - Interactive Text and Images of PDB Files at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-id||777855676_129.186.4.14||-info||MOLPROBE"><strong>MPBD</strong></a> - Molecular Probe Data Base at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; and <a href="gopher://gopher.slu.se/7waissrc%3a/wais-dbs/Biology/Oligos"><strong>MPDB</strong></a> at <a href="gopher://gopher.slu.se/">U. Agricultural Sciences</a>, Sweden&nbsp; <br />
<br />
&nbsp;<a href="http://cuhhca.hhmi.columbia.edu/moose/"><strong>MOOSE</strong></a> - Macromolecular Object Oriented Search Engine to Extract PDB Contained Information at <a href="http://cuhhca.hhmi.columbia.edu/">Columbia U.</a>&nbsp; <br />
<br />
&nbsp;<a href="http://ibc.wustl.edu/msa.html"><strong>MSA</strong></a> - Multiple Sequence Alignment at <a href="http://ibc.wustl.edu/">Washington U.</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.genome.ad.jp/SIT/MOTIF.html"><strong>MOTIF</strong></a> - Search Patterns in Protein Sequences at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan <a href="http://www.public.iastate.edu/~pedro/motif_query.html"><strong>Motif</strong></a> at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan w/ search from <a href="http://www.cc.iastate.edu/welcome.html">Iowa State</a>&nbsp; <br />
<br />
&nbsp;<a href="http://dot.imgen.bcm.tmc.edu:9331/multi-align/multi-align.html"><strong>Multiple Sequence Alignments</strong></a> - CLUSTAL-W, MAP, and PIMA alignments at <a href="http://www.bcm.tmc.edu/">Baylor College of Medicine</a>&nbsp; <br />
<br />
&nbsp;<a href="http://ndbserver.rutgers.edu/"><strong>NDB</strong></a> - Nucleic Acid Database at Rutgers U.&nbsp; <br />
<br />
&nbsp;<a href="http://www.cmpharm.ucsf.edu/~nomi/nnpredict.html"><strong>nnPredict</strong></a> - Predict Protein Secondary Structure at <a href="http://wormworld.ucsf.edu/">UCSF</a> and <a href="http://www.public.iastate.edu/~pedro/nnpredict_query.html"><strong>nnPredict</strong></a> at w/ search from <a href="http://www.cc.iastate.edu/welcome.html">Iowa State</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.gdb.org/Dan/proteins/nrl3d.html"><strong>NRL_3D</strong></a> - Sequence/Structure Database derived from PDB at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a> and <a href="http://www.embl-heidelberg.de/srs/srsc?-info||NRL3D"><strong>NRL_3D</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://ddbjs4h.genes.nig.ac.jp/"><strong>NRSub</strong></a> - A Non-Redundant DNA Sequence Database for <em>Bacillus subtilis</em> at <a href="http://www.nig.ac.jp/">National Institute of Genetics</a>, Japan&nbsp; <br />
<br />
<a href="http://cbrg.inf.ethz.ch/subsection3_1_4.html"><strong>NuclPepSearch</strong></a> - Search SwissProt for a Nucletide Sequence at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://chait-sgi.rockefeller.edu/"><strong>NYC-MASS</strong></a> - Protein Mass Spectrometry Database at <a href="http://www.rockefeller.edu/ru.home.html">Rockefeller U.</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/obstruct/obs_form.html"><strong>OBSTRUCT</strong></a> - Correlate Sequence Subsets of PDB Protein Structures at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://gdbwww.gdb.org/omimdoc/omimtop.html"><strong>OMIM</strong></a> - Online Mendelian Inheritance in Man at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
<br />
&nbsp;<a href="gopher://megasun.bch.umontreal.ca/11/Organelles/Genomes"><strong>Organelle Genome</strong></a>&nbsp; - A Sequence Database at <a href="gopher://megasun.bch.umontreal.ca/">U. Montreal</a>&nbsp; <br />
<br />
&nbsp;<a href="http://biotech.chem.indiana.edu/lib/orgstrain.html"><strong>Organisms and Strains</strong></a> - Links to Databases Specific to Organism and Cell Collections at <a href="http://biotech.chem.indiana.edu/">Biotech-Indiana</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.gdb.org/Dan/proteins/owl.html"><strong>OWL</strong></a> - Non-Redundant Protein Sequence Database (Updated Daily) at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a> and <a href="http://www.biochem.ucl.ac.uk/~attwood/OWL/OWL.html"><strong>OWL</strong></a> at <a href="http://www.biochem.ucl.ac.uk/">UCL-London</a>, UK&nbsp; <br />
<br />
&nbsp;<a href="http://www.mcs.anl.gov/home/papka/ROSS/patscan.html"><strong>PatScan</strong></a> - Look for Pattern Matches in DNA or Protein Sequences at <a href="http://www.mcs.anl.gov/">Argonne National Laboratory</a>&nbsp; <br />
<br />
&nbsp;<a href="http://ulrec3.unil.ch/software/PATFND_form.html"><strong>PatternFind</strong></a> - Search the SwissProt and Genpept Protein Sequence Databases with a <a href="http://expasy.hcuge.ch/txt/profile.txt">PROSITE-formatted</a> Pattern at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://www-pdd.ncifcrf.gov/PDD/GEN-docs/indexGEN.html"><strong>PDD</strong></a> - Protein Disease Database at <a href="http://www-pdd.ncifcrf.gov/">NIMH-NCI</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.pdb.bnl.gov:4148/cgi-bin/browse"><strong>PDB-Browser</strong></a>, <a href="gopher://pdb.pdb.bnl.gov/77/xfullindex/full"><strong>PDB-Index</strong></a> and <a href="gopher://pdb.pdb.bnl.gov/77/xstatusindex/status"><strong>PDB-Pending</strong></a> - <a href="http://www.pdb.bnl.gov/">Protein Data Bank</a> Structures at <a href="http://suntid.bnl.gov:8080/bnl.html">Brookhaven National Laboratory</a>, <a href="http://www.genome.ad.jp/htbin/bfind_pdb"><strong>PDB</strong></a> at <a href="http://www.genome.ad.jp/">GenomeNet</a> Japan, <a href="http://www.ibf.unige.it/7/sci/.PDB/pdbsearch"><strong>PDB</strong></a> at <a href="http://www.ibf.unige.it/">U. Genova</a>, Italy, <a href="http://www.ucmb.ulb.ac.be/pdb_seq_rel_jan94"><strong>PDB-List</strong></a> and <a href="http://www.ucmb.ulb.ac.be/pdb_annot_jan94"><strong>PDB-Annotated</strong></a> at <a href="http://www.ucmb.ulb.ac.be/index.html">Brussels Free U.</a>, Belgium and <a href="http://www.sander.embl-heidelberg.de/pdbsel/explanation.html"><strong>PDB-Select</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.nih.gov/molecular_modeling/pdb_at_a_glance.html"><strong>PDB At A Glance</strong></a> - Hierarchic Access to PDB Files at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-id||781260221_129.186.4.14||-info||PDBFINDER"><strong>PDBFINDER</strong></a> - A Database Containing PDB, DSSP and HSSP Information (see <a href="http://www.sander.embl-heidelberg.de/pdbfinder/overview.html"><strong>Documentation</strong></a>) at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.genome.ad.jp/htbin/bfind_pdbstr"><strong>PDBSTR</strong></a> - Re-organized Protein Data Bank at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan&nbsp; <br />
<br />
&nbsp;<a href="http://cbrg.inf.ethz.ch/subsection3_1_5.html"><strong>PepPepSearch</strong></a> - Search SwissProt for a Peptide Sequence at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://lenti.med.umn.edu/~shoop/sample.html"><strong>Plant EST Analysis</strong></a> - Similarity Analysis of Different Plant cDNA/EST Sequences at <a href="http://lenti.med.umn.edu/">U. Minnesota</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.public.iastate.edu/~pedro/pprotein_query.html"><strong>PHD</strong></a> - Predict Protein Secondary Structure at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a> w/ search from <a href="http://www.cc.iastate.edu/welcome.html">Iowa State</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.pasteur.fr/sas/phy/boot-sub.html"><strong>PHILIP-Bootstrapping Analysis</strong></a> - Divergence Between Protein or Nucleotide Sequences at <a href="http://www.pasteur.fr/">Institut Pasteur</a>, France&nbsp; <br />
<br />
&nbsp;<a href="http://genome.eerie.fr/gcg/phospepsort-query.html"><strong>Phospepsort</strong></a> - Digest Phosphorylated Peptide Sequences at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France&nbsp; <br />
<br />
&nbsp;<a href="http://expasy.hcuge.ch/ch2d/pi_tool.html"><strong>pI/Mw</strong></a> - Compute the Theoretical pI and Molecular Weight of a Protein Sequence at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://www.gdb.org/Dan/proteins/pir.html"><strong>PIR</strong></a> - Protein Identification Resource Database at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-info||PIRALN"><strong>PIRALN</strong></a> - Database of Sequence Alignments based on PIR at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.genome.ad.jp/htbin/bfind_pmd"><strong>PMD</strong></a> - Protein Mutant Database at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan and <a href="http://www.embl-heidelberg.de/srs/srsc?-info||PMD"><strong>PMD</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://alces.med.umn.edu/pmotif.html"><strong>PMOTIF</strong></a> - Search Protein Motifs in Gene Sequence at <a href="http://www.umn.edu/">U. Minnesota</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.biophys.uni-duesseldorf.de/service/polandform.html"><strong>Poland</strong></a> - Calculate the Thermal Denaturation Profile of Double Stranded RNA or DNA at <a href="http://www.biophys.uni-duesseldorf.de/">Uni-D&uuml;sseldorf</a>, Germany&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/predictprotein/predictprotein.html"><strong>PredictProtein</strong></a> - Predict Protein Secondary Structure at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.genome.ad.jp/htbin/bfind_prf"><strong>PRF</strong></a> - Protein Research Foundation Sequence Database at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan&nbsp; <br />
<br />
&nbsp;<a href="http://www-genome.wi.mit.edu/cgi-bin/primer2.2/primer_front"><strong>Primer</strong></a> - Select PCR Primers in a Gene Sequence at <a href="http://www-genome.wi.mit.edu/">WICGR-MIT</a> and <a href="http://alces.med.umn.edu/rawprimer.html"><strong>Primer</strong></a> at <a href="http://www.umn.edu/">U. Minnesota</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.biochem.ucl.ac.uk/~attwood/PRINTS/PRINTS.html"><strong>PRINTS</strong></a> - Protein Motif Fingerprints Database (see <a href="file://gopher.embl-heidelberg.de/pub/databases/prints/prints.doc"><strong>Documentation</strong></a>) and <a href="http://www.biochem.ucl.ac.uk/~attwood/ALIGN/ALIGN.html"><strong>PRINTS-ALIGN</strong></a> at <a href="http://www.biochem.ucl.ac.uk/">UCL-London</a>, UK and <a href="http://www.ch.embnet.org/srs/srsc?-info+PRINTS"><strong>PRINTS</strong></a> at <a href="http://www.ch.embnet.org/">EMBnet-Basel</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://protein.toulouse.inra.fr/prodom.html"><strong>ProDom</strong></a> - A Protein Domain Database and <a href="http://protein.toulouse.inra.fr/prodom/blast_form.html"><strong>ProDom-Search</strong></a> at <a href="http://www.jouy.inra.fr/infoservices-INRA/infoservices_donnees.html">INRA-Toulouse</a>, France, <a href="http://www.sanger.ac.uk/~esr/prodom.html"><strong>ProDom</strong></a> and <a href="http://www.sanger.ac.uk/~esr/prodom-blast.html"><strong>ProDom-Search</strong></a> at <a href="http://www.sanger.ac.uk/">Sanger Centre</a>, UK and <a href="http://www.embl-heidelberg.de/srs/srsc?-id||777855676_129.186.4.14||-info||PRODOM"><strong>ProDom</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://ulrec3.unil.ch/software/PRFSCAN_form.html"><strong>ProfileScan&nbsp;</strong></a> - Search a Sequence Against a Library of Profiles at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="gopher://bmerc-gopher.bu.edu/11/Databases/prolink"><strong>ProLink</strong></a> - Integrated Database of Protein Structure, Sequence Homology, and Functional Pattern Information at <a href="http://bmerc-www.bu.edu/">BMERC</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/prs.page"><strong>PROPSEARCH</strong></a> - Protein Sequence Search for Structural Homology Based on Aminoacid Properties at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://expasy.hcuge.ch/sprot/prosite.html"><strong>PROSITE</strong></a> - Protein Sites and Patterns Database at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland, <a href="http://ulrec3.unil.ch/software/PSTSCAN_form.html"><strong>PrositeScan</strong></a> at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland and <a href="http://www.ebi.ac.uk/searches/prosite_input.html"><strong>PROSITE-Search</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="file://ftp.embl-heidelberg.de/pub/databases/protein_extras"><strong>Protein-Extras</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.public.iastate.edu/~pedro/p_families.html"><strong>Protein Families</strong></a> - Links to Information on Different Protein Families at <a href="http://www.cc.iastate.edu/">Iowa State</a>&nbsp; <br />
<br />
&nbsp;<a href="http://chait-sgi.rockefeller.edu/cgi-bin/prot-id/1/1"><strong>Prot-ID</strong></a> - Identify a Protein from Masses of Enzymatic Digestion Peptide Fragments at <a href="http://chait-sgi.rockefeller.edu/">Rockefeller U.</a>&nbsp; <br />
<br />
&nbsp;<a href="file://cb-iris.stanford.edu/pub/ProteinMovements/ProtMotDB.main.html"><strong>Protein Motions</strong></a>&nbsp; - DataBase of Protein Movements at <a href="http://hyper.stanford.edu/">Stanford U.</a>&nbsp; <br />
<br />
&nbsp;<a href="http://bmerc-www.bu.edu/psa/"><strong>PSA</strong></a> - Protein Sequence Analysis for Sequences of Unknown Structure at <a href="http://bmerc-www.bu.edu/welcome.html">BMERC/MBCRR</a>&nbsp; <br />
<br />
&nbsp;<a href="http://psort.nibb.ac.jp/"><strong>PSORT</strong></a> - Predict Protein Sorting Signals Coded in Amino Acid Sequences at <a href="http://www.genome.ad.jp/">GenomeNet</a>, Japan&nbsp; <br />
<br />
&nbsp;<a href="http://dot.imgen.bcm.tmc.edu:9331/pssprediction/pssp.html"><strong>PSSP</strong></a> - Protein Secondary Structure Prediction at <a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src="></a><br />
<br />
<a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src=">&nbsp;</a><a href="http://www.mcs.anl.gov/home/compbio/PUMA/Production/puma.html"><strong>PUMA</strong></a> - Phylogeny of Unicellular Organims with Metabolism and Alignments from <a href="http://www.mcs.anl.gov/home/compbio/default.html">MCS-Computational Biology</a> at <a href="http://www.anl.gov/">Argonne National Laboratory</a>&nbsp; <br />
<br />
&nbsp;<a href="file://ftp.embl-heidelberg.de/pub/databases/protein_extras/puu/domains.puu"><strong>PUU</strong></a> - Protein Domains Database Based on PDB-Select at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://geta.life.uiuc.edu/index.html"><strong>RDP</strong></a> - Ribosomal Database Project at U. Illinois&nbsp; <br />
<br />
&nbsp;<a href="http://vent.neb.com/rebase/rebase.html"><strong>ReBase</strong></a> - Restriction Enzyme Database and <a href="http://www.neb.com/cgi-bin/wais_ref.pl"><strong>ReBase-Search</strong></a> at <a href="http://vent.neb.com/">New England Biolabs</a>, <a href="http://www.embl-heidelberg.de/srs/srsc?-id||777855676_129.186.4.14||-info||REBASE"><strong>ReBase</strong></a> at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a> and <a href="http://www.gdb.org/Dan/rebase/rebase.html"><strong>ReBase</strong></a> at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
<br />
&nbsp;<a href="http://www.embl-heidelberg.de/repro/rep_tot.html"><strong>REPRO</strong></a> - Recognition of Protein Sequence Repeats at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
<br />
&nbsp;<a href="http://pundit.colorado.edu:8080/"><strong>RNA Secondary Structures</strong></a> - Information on Group I Introns and rRNA at <a href="http://www.colorado.edu/">U. Colorado-Boulder</a>&nbsp; <br />
<br />
<a href="http://www-rrna.uia.ac.be/rrna/index.html"><strong>rRNA</strong></a> - Databases of Ribosomal Subunit RNA Sequences at <a href="http://www.uia.ac.be/">U. Antwerp</a>, Belgium&nbsp; <br />
<br />
&nbsp;<strong>RSVP</strong> - Rapid Sequence Visualization in Postscript for Analysis of DNA Sequences at <a href="http://cbil.humgen.upenn.edu/">CBIL-U. Pennsylvania</a>&nbsp; <br />
<br />
&nbsp;<a href="http://ulrec3.unil.ch/software/SAPS_form.html"><strong>SAPS</strong></a> - Statistical Analysis of Protein Sequences at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland&nbsp; <br />
<br />
&nbsp;<a href="http://base.icgeb.trieste.it/sbase/"><strong>SBASE</strong></a> - Library of Protein Domains and <a href="http://base.icgeb.trieste.it/sbase/blast.html"><strong>SBASE-Search</strong></a>&nbsp; at <a href="http://base.icgeb.trieste.it/">ICGEB-Trieste</a>, Italy&nbsp; <br />
<br />
<a href="http://geoff.biop.ox.ac.uk/servers/scanps_server.html"><strong>SCANPS</strong></a> - Scan Protein Sequences at <a href="http://geoff.biop.ox.ac.uk/">U. Oxford</a>, UK&nbsp; <br />
<br />
&nbsp;<a href="http://www.bio.cam.ac.uk/scop/"><strong>SCOP</strong></a> - Structural Classification of Proteins at <a href="http://www.bio.cam.ac.uk/">Cambridge</a>, UK and <a href="http://www.nick.med.usf.edu/scop/index.html"><strong>SCOP</strong></a> at <a href="http://www.nick.med.usf.edu/">U. South Florida</a>&nbsp; <br />
<br />
&nbsp;<a href="http://dot.imgen.bcm.tmc.edu:9331/seq-annot/home.html"><strong>Sequence Annotation</strong></a> - Annotations on NCBI Sequences at <a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src="></a><br />
<br />
<a alt="(W3)" images="" href="http://www.bcm.tmc.edu/%3EBaylor%20College%20of%20Medicine%3C/a%3E%20%3Cimg%20src=">&nbsp;</a><a href="http://alces.med.umn.edu/rawtrans.html"><strong>Sequence Translation</strong></a> - Translate Gene Sequences at <a href="http://www.umn.edu/">U. Minnesota</a>&nbsp; <br />
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&nbsp;<a href="ftp://dasher.wustl.edu/pub/sleuth/data"><strong>Sleuth</strong></a> - Amino Acid Conformation and Solvent Accessibility of PDB Files at <a href="http://ibc.wustl.edu/">Washington U.</a>&nbsp; <br />
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&nbsp;<a href="http://www.ibcp.fr/predict.html"><strong>SOPM</strong></a> - Self Optimized Prediction Method for Prediction of Protein Secondary Structure at <a href="http://www.ibcp.fr/">IBCP-CNRS</a>, France&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc"><strong>SRSWWW</strong></a> - Network Browser for Databanks in Molecular Biology (w/ <a href="http://www.embl-heidelberg.de/srs/net.html"><strong>diagram links</strong></a>) at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="http://www.ch.embnet.org/srs/index.html"><strong>SRSWWW-Directory</strong></a> - Directory of SRSWWW Network Browsers for Biological Databanks and <a href="http://www.ch.embnet.org/srs/status.html"><strong>SRSWWW-Global Status</strong></a> at <a href="http://www.ch.embnet.org/">EMBnet-Basel</a>&nbsp; <br />
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&nbsp;<a href="http://genome.eerie.fr/fasta/ssearch-query.html"><strong>SSEARCH</strong></a> - Universal Sequence Comparison Using the Smith-Waterman Algorithm at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/sspred/sspred_info.html"><strong>SSPRED</strong></a> - Predict the Secondary Structure of Proteins at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>, Germany&nbsp;<br />
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&nbsp;<a href="http://www.embl-heidelberg.de/stride/stride.html"><strong>STRIDE</strong></a> - Find Secondary Structural Elements in PDB Proteins Structures at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="http://www-genome.wi.mit.edu/cgi-bin/www-STS_Pipeline/pipeline_front"><strong>STS Pipeline</strong></a> - Analysis and STS Primer Picking of Short DNA Sequences with Duplicate Checking, Sequence Repeat Finding, Restriction Analysis, Vector Identification and BLAST Searching at <a href="http://www-genome.wi.mit.edu/">MIT</a>&nbsp; <br />
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&nbsp;<a href="http://www.ucmb.ulb.ac.be/~joan/survol/form.html"><strong>SURVOL</strong></a> - Analysis of Protein Atomic Volumes at <a href="http://www.ucmb.ulb.ac.be/">UCMB</a>, Belgium&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/ch2d/ch2d-top.html"><strong>Swiss-2DPage</strong></a> - Two-dimensional Polyacrylamide Gel Electrophoresis Database at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.ebi.ac.uk/srs/srsc?-info+SWISSDOM"><strong>SWISSDOM</strong></a> - SwissProt Entries in a ProDom Map at <a href="http://www.ebi.ac.uk/">EBI</a>, UK&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/swissmod/SWISS-MODEL.html"><strong>Swiss-Model</strong></a>&nbsp; - Automated Protein Modelling at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.ebi.ac.uk/srs/srsc?-info||SWISSNEW"><strong>SWISSNEW</strong></a> - New SwissProt Sequences at <a href="http://www.ebi.ac.uk/">EBI</a>, UK&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/sprot/sprot-top.html"><strong>SwissProt</strong></a> - Protein Sequence Database (+ Weekly Updates) at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/swisshop/SwissShopReq.html"><strong>Swiss-Shop</strong></a>&nbsp; - Automated SwissProt and Prosite Information Queries at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.gdb.org/Dan/tbase/tbase.html"><strong>TBASE</strong></a> - Transgenic/Targeted Mutation Database at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a>&nbsp; <br />
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&nbsp;<a href="http://genome.eerie.fr/fasta/tfasta-query.html"><strong>TFASTA</strong></a> - Match a Protein Sequence Against All Six Frames of GenBank Sequences at <a href="http://genome.eerie.fr/home.html">EERIE-Nimes</a>, France&nbsp; <br />
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&nbsp;<a href="gopher://gopher.nih.gov/77/gopherlib/indices/tfd/index"><strong>TFD</strong></a> - Transcription Factor Database at <a href="http://www.nih.gov/">NIH</a>&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-info+TFFACTOR"><strong>TFFACTOR</strong></a> and <a href="http://www.embl-heidelberg.de/srs/srsc?-info+TFSITE"><strong>TFSITE</strong></a> - Transcription Factor Data at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="http://alces.med.umn.edu/rawtm.html"><strong>Tm</strong></a> - Oligonucleotide Melting Point Determination at <a href="http://www.umn.edu/">U. Minnesota</a>&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/tmap/tmap_sin.html"><strong>TMAP</strong></a> - Identification of Transmembrane Segments on a Protein Sequence at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="ftp://ulrec3.unil.ch/pub/tmbase"><strong>TMBASE</strong></a> - Transmembrane Protein Database at <a href="http://www.unil.ch/">U. Lausanne</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://ulrec3.unil.ch/software/TMPRED_form.html"><strong>TMpred</strong></a> - Prediction of Transmembrane Regions and Orientation in Protein Sequencs at <a href="http://ulrec3.unil.ch/">ISREC</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://expasy.hcuge.ch/www/dna.html"><strong>Translate</strong></a> - Translate a Nucleotide Sequence to a Protein at <a href="http://expasy.hcuge.ch/">ExPASy</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://cbrg.inf.ethz.ch/subsection3_1_6.html"><strong>TreeGen</strong></a> - Tree Generation from Distance Data at <a href="http://cbrg.inf.ethz.ch/">ETH-Z&uuml;rich</a>, Switzerland&nbsp; <br />
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&nbsp;<a href="http://www.embl-heidelberg.de/srs/srsc?-id||781260221_129.186.4.14||-info||TREMBL"><strong>TREMBL</strong></a> - Database of Translated Peptide Sequences of All CDS Features from EMBL Sequences at <a href="http://www.embl-heidelberg.de/">EMBL-Heidelberg</a>&nbsp; <br />
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&nbsp;<a href="http://cammsg3.caos.kun.nl:8000/srs/srsc?-info+VECBASE"><strong>VecBase</strong></a> - Cloning Vector Sequence Database.at <a href="http://cammsg3.caos.kun.nl:8000/">CAOS/CAMM</a>, The Netherlands&nbsp; <br />
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&nbsp;<a href="http://biology.queensu.ca/~miseners/vector.html"><strong>Vector-DB</strong></a> - Cloning Vector Database at <a href="http://www.queensu.ca/">Queen's U.-Kensington</a>, Canada , <a href="http://ben.vub.ac.be/srs/srsc?-info+VECTOR"><strong>VECTOR</strong></a> at <a href="http://ben.vub.ac.be/">BEN</a>, Belgium , <a href="gopher://gopher.gdb.org/77/.INDEX/vector"><strong>Vector</strong></a> at <a href="http://www.gdb.org/hopkins.html">Johns Hopkins</a> and <a href="gopher://virus1.virus.kyoto-u.ac.jp/77/.index/vector.ig/index"><strong>Vector-ig</strong></a> at <a href="http://virus1.virus.kyoto-u.ac.jp/">IVR</a>, Kyoto-U., Japan&nbsp; <br />
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&nbsp;<a href="http://www.bio.cam.ac.uk/seqlogo/logo.cgi"><strong>WebLogo</strong></a> - Sequence Logo Generation at <a href="http://www.bio.cam.ac.uk/">Cambridge U.</a>, UK&nbsp; <br />
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&nbsp;<a href="http://kestrel.ludwig.ucl.ac.uk/zpred.html"><strong>ZPRED</strong></a> - MultPredict Secondary Structure of Multiply Aligned Protein Sequences at <a href="http://kestrel.ludwig.ucl.ac.uk/">Ludwig Institute for Cancer Research</a>, UK&nbsp; <br />