| • AAindex -http://www.genome.ad.aj/aaindex/ |
| • AARSDB -http://rose.man.pozman.pl/aars/index.html |
| • ADDA -http://ekhidna.biocenter.helsinki.fi:8080/examples/servlets/adda/ |
| • ASC -http://bioinformatics.isa.cnr.it/ASC/ |
| • ASPD -http://wwwmgs.bionet.nsc.ru/mgs/gnw/aspd/ |
| • BacTregulators -http://www.bactregulators.org/ |
| • BIOZON -http://biozon.org |
| • Blocks -http://blocks.fhcrc.org/ |
| • CDD -http://www.ncbi.nlm.nih.gov/structure/cdd/cdd.shtml |
| • CluSTr -http://www.ebi.ac.uk/clustr |
| • COMe -http://www.ebi.ac.uk/come |
| • CopS -http://203.90.127.70/copsv2/index.html |
| • CSA -http://www.ebi.ac.uk/thornton-srv/database/CSA |
| • CSDBase -http://www.chemie.uni-marburg.de/~csdbase/ |
| • CuticleDB -http://bioinformatics.biol.uoa.gr/cuticleDB |
| • Cybase -http://research.imb.uq.edu.au/cybase/html/index.php |
| • DBSubLoc -http://www.bioinfo.tsinghua.edu.cn/dbsubloc.html |
| • DCCP -http://sdbi.sdut.edu.cn/DCCP/en/index.php |
| • DExH/D Family Database -http://www.helicase.net/dexhd/dbhome.htm |
| • eBLOCKS -http://fold.stanford.edu/eblocks/acsearch.html |
| • eMOTIF -http://motif.stanford.edu/emotif |
| • Endogenous GPCR List -http://www.tumor-gene.org/GPCR/gpcr.html |
| • EROP-Moscow -http://erop.inbi.ras.ru |
| • ESTHER -http://www.ensam.inra.fr/esther |
| • FunShift -http://funshift.cgb.ki.se/ |
| • GPCRDB -http://www.gpcr.org/7tm/ |
| • gpDB -http://bioinformatics.biol.uoa.gr/gpDB |
| • Histone Database -http://research.nhgri.nih.gov/histones/ |
| • Hits -http://hits.isb-sib.ch/ |
| • Homeobox Page -http://www.biosci.ki.se/groups/tbu/homeo.html |
| • Homeodomain Resource -http://research.nhgri.nih.gov/homeodomain/ |
| • HORDE -http://bioinfo.weizmann.ac.it/HORDE |
| • Hox-Pro -http://www.iephb.nw.ru/labs/lab38/spirov/hox_pro/hox-pro00.html |
| • InBase -http://www.neb.com/neb/inteins.html |
| • InterPro -http://www.ebi.ac.uk/interpro |
| • iProClass -http://pir.georgetown.edu/gfserver/proclass.html |
| • iProClass -http://pir.georgetown.edu/iproclass |
| • KinG – Kinase in Genomes -http://hodkin.mbu.iisc.ernet.in/~king |
| • Knottins -http://knnottin.cbs.cnrs.fr |
| • LGICdb -http://www.pasture.fr/recherche/banques/LGIC/LGIC.html |
| • Lipase Engineering Database -http://www.led.uni-stuttgart.de/ |
| • LOCATE -http://mpdb.imb.uq.edu.au |
| • LOX-DB -http://www.dkfz-heidelberg.de/spec/lox-db/ |
| • MEROPS -http://merops.sanger.ac.uk/ |
| • Metalloprotein Site -http://metallo.scripps.edu/ |
| • MulPSSM -http://hodgkin.mbu.iisc.ernet.in/~mulpssm |
| • NESbase -http://www.cbs.dtu.dk/database/NESbase |
| • NLSdb -http://cubic.bioc.columbia.edu/db/NLSdb/ |
| • NMPdb -http://www.rostlab.org/db/NMPdb/ |
| • NOPdb -http://www.lamondlab.com/NOPdb/ |
| • NPD -http://npd.hgu.mrc.ac.uk/ |
| • Nuclear Receptor Resource -http://nrr.georgetown.edu/NRR/nrrhome.html |
| • NuclearRDB -http://www.receptors.org/NR/ |
| • NUREBASE -http://www.ens-lyon.fr/LBMC/laudet/nurebase.html |
| • NURSA -http://www.nursa.org |
| • O-GlycBase -http://www.cbs.dtu.dk/database/OGLYBASE/ |
| • Olfactory Recptor Database -http://senselab.med.yale.edu/senselab/ordb/ |
| • ooTFD -http://www.ifti.org/ootfd |
| • PA-GOSUB -http://www.cs.ualberta.ca/~bioinfo/PA/ProteomeIndex.html |
| • PDBSite -http://srs6.bionet.nsc.ru/srs6/ |
| • Pfam -http://www.sanger.ac.uk/Software/Pfam/ |
| • Phospho.ELM -http://phospho.elm.eu.org/ |
| • PINT -http://pintdb.dyndns.org/index.html |
| • PIR-ALN-http://pir.gerorgetown.edu/pirwww/dbinfo/piraln.html |
| • PIR-NREF -http://pir.georgetown.edu/pirwww/pimref.shtml |
| • PIRSF -http://pir.gerogetown.edu/pirsf/ |
| • PKR -http://pkr.sdsc.edu/html/index.shtml |
| • PLPMDB -http://www.studiofmp.com/plpmdb/ |
| • PPD -http://www.jenner.ac.uk/ppd |
| • PRECISE -http://precise.bu.edu/precisedb/ |
| • PRF -http://www.prf.or.jp/en |
| • PRINTS -http://umber.sbs.man.ac.uk/dbbrowser/PRINTS/ |
| • ProDom -http://www.toulouse.inra.fr/prodom.html |
| • ProLysED -http://genome.ukm.my/prolyses |
| • Prolysis -http://delphi.phys.univ-tours.fr/Prolysis/ |
| • PROMISE -http://metallo.scripps.edu/PROMISE |
| • ProNIT -http://gibk26.bse.kyutech.ac.jp/jouhou/pronit/pronit.html |
| • ProRule-http://expasy.org/tools/scanprosite |
| • PROSITE -http://expasy.org/prosite |
| • ProTeus-http://www.proteus.cs.huji.ac.il/ |
| • ProTherm -http://gibk26.bse.kyutech.ac.jp/jouhou/protherm/protherm.html |
| • ProtoMap -http://protomap.cornell.edu/ |
| • ProtoNet -http://www.protonet.cs.hugi.ac.il/ |
| • PSORTdb -http://db.psort.org/ |
| • REBASE -http://rebase.neb.com/rebase/rebase.html |
| • REFOLD -http://www.refold.med.monash.edu.au |
| • Ribonuclease P Database -http://www.mbio.ncsu.edu/RNaseP/home.html |
| • RNRdb -http://rnrdb.molbio.su.se/ |
| • RPG -http://ribosome.miyazaki-med.ac.jp/ |
| • RTKdb -http://pbil.univ-lyon1.fr/RTKdb |
| • S/MARt db -http://smartdb.bioinf.med.uni-goettingen.de/ |
| • S4 -http://compbio.mds.qmw.ac.uk/~james/S4.shtml |
| • SBASE -http://www.icgeb.org/sbase |
| • Scorpion -http://research.i2r.a-star.edu.sg:8080/scorpion/ |
| • SDAP -http://fermi.utmb.edu/SDAP |
| • SENTRA -http://compbio.mcs.anl.gov/sentra/ |
| • SEVENS -http://sevens.cbrc.jp/ |
| • SIMAP -http://mips.gsf.de/services/analysis/simap/ |
| • SitesBase -http://www.bioinformatics.leeds.ac.uk/sb/ |
| • SMART -http://smart.embi-heidelberg.de/ |
| • SPD -http://spd.cbi.pku.edu.cn |
| • SRPDB -http://bio.lundberg.gu.se/dbs/SRPDB/SRPDB.html |
| • SUPFAM -http://pauling.mbu.iisc.ernet.in/~supfam |
| • Swiss-Prot -http://www.expasy.org/sprot |
| • SYSTERS -http://systers.molgen.mpg.de/ |
| • TCDB -http://www.tcdb.org/ |
| • TECRdb -http://xpdb.nist.gov/enzyme_thermodynamics/ |
| • THGS -http://pranag.physics.iisc.ernet.in/thgs/ |
| • TIGRFAMs -http://www.tigr.org/TIGRFAMs |
| • TMPDB -http://bioinfo.si.hirosaki-u.ac.jp/~TMPDB |
| • TrEMBL -http://www.expasy.org/sprot |
| • TrSDB -http://bioinf.uab.es/cgi-bin/trsdb/trsdb.pl |
| • UniParc -http://www.uniprot.org/database/archive.shtml |
| • UniProt – http://www.uniprot.org/ |
| • UniRef -http://www.uniprot.org/database/nref.shtml |
| • VKCDB -http://vkcdb.biology.ualberta.ca/ |
| • WntDatabase -http://www.stanford.edu/~musse/wntwindow.html |
| •EXProt -http://www.cmbi.kun.nl/EXPort/ |
| •MIPS -http://mips.gsf.de/ |
| •NCBI Protein Database -http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Protein |
| 3D structure of protein funcional sites. |
| 7-transmembrane helix receptors (G-protein coupled). |
| A database of bacterial protease systems. |
| A database of protein and gene family classification. |
| A database of protein domain classification. |
| A dtabase of protein domains and motifs. |
| Active Sequence Collection: biologically-active peptides. |
| Alignments of conserved regions in protein families. |
| All protein sequences: translated from Genbank and imported from other protein databases. |
| Aminoacyl-tRNA synthetase database. |
| Artificial selected proteins/peptides database. |
| Bioogically significant protein patterns and profiles. |
| Catalytic Site Atlas: active sites and catalytic residues in enzymes of known 3D structures. |
| Clustered sets of related sequences from UniProt. |
| Clusters of Swiss-Prot + TrEMBL proteins. |
| Cold shock domain-containing proteins. |
| Comprehensive peptide signature database. |
| Conserved domain database, includes protein domains from Pfam, SMART, COG and KOG databases. |
| Coordination of Metals etc.: classification of metalloproteins. |
| Curated database of protein sequence alignments. |
| Database of copper-chelating proteins. |
| Database of individual protein families |
| Database of Knottins – small proteins with an unusual „disulphide through disulphide“ knot.. |
| Database of protein subcelluar localization. |
| Database of proteolytic enzymes (peptidases). |
| Database of scorpion toxins. |
| DEAD-box, DEAH-box and DExH-box proteins. |
| Endogenous regulatory oligopeptide database. |
| Estrase and other alpha/beta hydrolase enzmymes. |
| Experimental data on protein refolding and purification. |
| Experimentally-charaterized transmembrane topologies. |
| Family/superfamily classification of whole proteins. |
| Functional and structural information on PROSITE profiles. |
| Functional divergence between the subfamilies of a protein domain family. |
| G protein-coupled receptors database. |
| G-proteins and their interaction with GPCRs. |
| Grouping of sequence families into superfamilies. |
| Hierarchical classification of Swiss-Prot proteins. |
| Hierarchical clustering of Swiss-Prot proteins. |
| Hierarchical gene family fingerprints. |
| Highly conserved protein sequence blocks. |
| Histone fold sequence and structures. |
| Homeobox genes database. |
| Homeobox proteins, classification and evolution. |
| Homeodomain sequence, structures and related genetic and genomic information. |
| Human olfactory receptor data exploratorium. |
| Integrated protein classification database. |
| Integrated resource of protein families, domains and functional sites. |
| Inteins (protein splcing elements) database: proteins, sequence, bibliography. |
| Known ligand binding sites in the PDB. |
| Ligand-gated ion channel subunit sequences database. |
| Mammalian, invertebrate, plant and fungal lipoxygenases. |
| Membarane organization and subcellular localization of mouse proteins.. |
| Metal-binding sites in metalloproteins. |
| Multiple PSSMs of structural and sequence families. |
| Now UniProt/SwissProt, part of the UniPort knowledgebase. |
| Now UniProt/TrEMBL, part of the UniPort knowledgebase. |
| Nuclear export signal database. |
| Nuclear hormone receptors database. |
| Nuclear loalization signals. |
| Nuclear matrix associated proteins database. |
| Nuclear protein database. |
| Nuclear receptor signaling atlas. |
| Nuclear receptor superfamily. |
| Nuclear scaffold/matrix attached regions. |
| Nucleolar protein database. |
| O- and C- linked glycosylation sites in protein. |
| Object-oriented transcription factors database. |
| Physiochemical properties of amino acids. |
| PIR’s non-redundant reference protein database. |
| Predicted and consensus interaction sites in enzymes. |
| Prosthetic centers and metal ions in protein active sites. |
| Protease and natural and synthetic protease inhibitors. |
| Protein databases at Munich Information Center for Protein Sequences. |
| Protein domain database; protein classification |
| Protein Domain Families. |
| Protein domain sequence and tools. |
| Protein families defined by PIR superfamilies and PROSITE patterns. |
| Protein families: Multiple sequence alignments and profile hidden markov models of protein domains. |
| Protein localization and targeting |
| Protein pKa database. |
| Protein properties |
| Protein research foundation database of peptides: seuquences, literature and unnatural amino acids. |
| Protein sequence motif determination and searches. |
| Protein sequence motifs and active sites |
| Protein sequences from model organism, GO assignment and subcellular localization. |
| Protein subcellular localization in bacteria. |
| Protein-protein interactions thermodynamic database. |
| Proteins of the signal recognition particles. |
| Proteins with cyclic backbones. |
| Prtoein kinase resource: sequence, enzymology, genetics and molecular and structural properties. |
| Pyridoxal-5′-phosphate dependent enzymes mutation. |
| Receptor tyrosine kinase sequences. |
| Restriction enzyme and associated methylases. |
| Ribonucleotide reductase database. |
| Ribosomal protein gene database. |
| RNase P Sequences, alignments and structures. |
| S/T/Y protein phosphorylation sites(former Phosphobase). |
| S/T/Y- Specific protein kinase encoded in complete genomes. |
| Secreted protein database. |
| Sensory signal transduction proteins. |
| Sequence, structure and function of lipase and estrases. |
| Sequences for olfactory receptor-like molecules. |
| Sequences of proteins with experimentally verified function. |
| Signature sequences at the protein N- and C- termini.. |
| Similarity Matrix of Proteins: Precomputed similarity data. |
| Simple Modular Architecture Research Tool: signalling extracelluar and chromatin-associated protein domains. |
| Structural database of allergenic proteins and food allergens. |
| Structural proteins of Arthropod cuticle. |
| Structure-based sequence alignmetns of SCOP superfamilies. |
| Systematic re-searching and clustreing of proteins. |
| Thermodynamic data for wild-type and mutant proteins. |
| Thermodynamic data on protein-nucleic acid interactions. |
| Thermodynamics of enzyme-catalyzed reactions. |
| TIGR protein families adapted for functional annotation. |
| Transcription factor database. |
| Transcriptional regulators of AraC and TetR families. |
| Transmembrane helices in genome sequences. |
| Transporter protein classification database. |
| UniProt archive, a repository of all protein sequences. |
| Universal protein knowledgebase. |
| Voltage-gated potassium channel database. |
| Wnt proteins and phenotypes. |
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