| Sequence: |
|
|
| DDBJ |
http://www.ddbj.nig.ac.jp |
138,030,308 entries |
| GeneCards |
http://bioinfo.weizmann.ac.il/cards/ |
67,217 genes |
| InterPro |
http://www.ebi.ac.uk/interpro/ |
14,633 families |
| NCBI |
http://www.ncbi.nlm.nih.gov |
NA |
| nr |
http://www.ncbi.nlm.nih.gov/BLAST/ |
NA |
| OWL |
http://www.bioinf.man.ac.uk/dbbrowser/OWL |
279,796 entries |
| PIR |
http://pir.georgetown.edu |
NA |
| PRF |
http://www.genome.ad.jp/htbin/www_bfind?prf |
1,365,912 entries |
| UniProt |
http://www.uniprot.org |
531,473 proteins |
| SYSTERS |
http://systers.molgen.mpg.de |
NA |
| Structure: |
|
|
| 3Dee |
http://www.compbio.dundee.ac.uk/3Dee/ |
NA |
| ArchDB |
http://sbi.imim.es/cgi-bin/archdb//loops.pl |
41,294 classified loops |
| ASTRAL |
http://astral.berkeley.edu |
NA |
| BioMagResBank |
http://www.bmrb.wisc.edu |
6339 entries |
| CDDB |
http://www.cdyn.org |
NA |
| EMDataBank |
http://EMDataBank.org |
1138 EMDB maps |
| Enzyme Structures |
http://www.biochem.ucl.ac.uk/bsm/enzymes/ |
10,208 structures |
| fPOP |
http://pocket.uchicago.edu/fpop/ |
>40,000 structures |
| JenaLib |
http://www.imb-jena.de/IMAGE.html |
NA |
| PMP |
http://www.proteinmodelportal.org |
3,754,388 proteins |
| Proteopedia |
http://proteopedia.org |
>75,000 entries |
| MolMovDB |
http://bioinfo.mbb.yale.edu/MolMovDB/ |
NA |
| PDB |
http://www.pdb.org |
75,594 structures |
| PDBLight |
http://mufold.org/pdblight.php |
72,023 structures |
| PDBsum |
http://www.ebi.ac.uk/pdbsum/ |
78,559 structures |
| PDBTM |
http://pdbtm.enzim.hu |
1489 transmembrane structures |
| PDBWiki |
http://pdbwiki.org |
74,296 structures |
| PISA |
http://pdbe.org/pisa |
NA |
| PMP |
http://www.proteinmodelportal.org |
3,754,388 proteins |
| SBKB |
http://sbkb.org |
5490 structures |
| TOPSAN |
http://www.topsan.org |
NA |
| Sequence family: |
|
|
| COG |
http://www.ncbi.nlm.nih.gov/COG/ |
66 genomes |
| Pfam |
http://pfam.sanger.ac.uk |
12,273 families |
| PRINTS |
http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/ |
12,121 sites |
| iProClass |
http://pir.georgetown.edu/iproclass/ |
18,492,417 entries |
| ProDom |
http://prodom.prabi.fr/prodom/current/html/home.php |
2,001,128 sequences |
| PROSITE |
http://prosite.expasy.org |
1620 entries |
| SMART |
http://smart.embl-heidelberg.de |
> 500 domain families |
| Structure family: |
|
|
| AutoPSI |
http://services.bio.ifi.lmu.de:1046/AutoPSIDB/ |
NA |
| CATH |
http://www.cathdb.info |
152,920 domains |
| CDD |
http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml |
NA |
| CE |
http://cl.sdsc.edu/ce.html |
NA |
| CL |
http://cl.sdsc.edu/cl1.html |
NA |
| FSSP |
http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-page+LibInfo+-id+5Ti2u1RffMj+-lib+FSSP |
2860 folds |
| HOMSTRAD |
http://tardis.nibio.go.jp/homstrad/ |
1032 families |
| MODBASE |
http://modbase.compbio.ucsf.edu |
3,497,441 proteins |
| PartsList |
http://bioinfo.mbb.yale.edu/align/ |
NA |
| PDBe |
http://www.ebi.ac.uk/pdbe/ |
75,694 entries |
| SCOP |
http://scop.mrc-lmb.cam.ac.uk/scop/ |
110,800 domains |
| VAST |
http://www.ncbi.nlm.nih.gov/Structure/ |
NA |
| Function family: |
|
|
| AARSDB |
http://www.man.poznan.pl/aars/ |
NA |
| ASD |
http://mdl.shsmu.edu.cn/ASD/ |
336 allosteric proteins |
| ASPD |
http://wwwmgs.bionet.nsc.ru/mgs/gnw/aspd/ |
NA |
| BRENDA |
http://www.brenda-enzymes.org |
5373 enzymes |
| Catalytic Site Atlas |
http://www.ebi.ac.uk/thornton-srv/databases/CSA/ |
26,846 entries |
| DAVID |
http://david.abcc.ncifcrf.gov |
NA |
| EF-hand CaBP |
http://structbio.vanderbilt.edu/cabp_database/ |
NA |
| EcoCyc |
http://ecocyc.org |
NA |
| ENZYME |
http://enzyme.expasy.org |
4579 entries |
| Gene Ontology (GO) |
http://geneontology.org |
NA |
| GPCRDB |
http://www.gpcr.org/7tm/ |
42,110 proteins |
| Homeobox Page |
http://www.biosci.ki.se/groups/tbu/homeo.html |
NA |
| KEGG |
http://www.genome.ad.jp/kegg/ |
NA |
| Laminin Database |
http://www.lm.lncc.br |
NA |
| MatrixDB |
http://matrixdb.ibcp.fr |
NA |
| MEROPS (peptidase) |
http://merops.sanger.ac.uk |
NA |
| MetaCyc |
http://metacyc.org |
1747 pathways |
| P2CS |
http://www.p2cs.org |
81,988 proteins |
| PREX |
http://www.csb.wfu.edu/prex/ |
NA |
| Protein Kinase Resource (PKR) |
http://pkr.genomics.purdue.edu |
NA |
| Protein Ontology |
http://pir.georgetown.edu/pro/ |
NA |
| RNase P |
http://www.mbio.ncsu.edu/RNaseP/home.html |
NA |
| SuperCYP |
http://bioinformatics.charite.de/supercyp/ |
2,785 Cytochrome-Drug interactions |
| TransportDB |
http://www.membranetransport.org |
365 species |
| Wnt gene Homepage |
http://www.stanford.edu/group/nusselab/cgi-bin/wnt/ |
NA |
| Modifications: |
|
|
| CPLA |
http://cpla.biocuckoo.org |
7,151 lysine acetylation sites |
| O-GlycBase |
http://www.cbs.dtu.dk/databases/OGLYCBASE/ |
2413 O-glycosylation sites |
| P3DB |
http://p3db.org |
31,019 phosphosites |
| Phospho3D |
http://www.phospho3d.org |
NA |
| Phospho.ELM |
http://phospho.elm.eu.org |
>42,500 phosphosites |
| PHOSIDA |
http://www.phosida.com |
80,062 sites |
| Localization: |
|
|
| Centrosome:db |
http://centrosome.dacya.ucm.es |
NA |
| eSLDB |
http://gpcr.biocomp.unibo.it/esldb |
NA |
| LOCATE |
http://locate.imb.uq.edu.au |
>100,000 proteins |
| MiCroKit |
http://microkit.biocuckoo.org |
1,489 proteins |
| NPD |
http://npd.hgu.mrc.ac.uk |
>1000 proteins |
| NURSA |
http://www.nursa.org |
NA |
| Organelle DB |
http://organelledb.lsi.umich.edu |
50 organelles |
| ORGe |
http://drake.mcmaster.ca/ogre/ |
1244 metazoan organisms |
| PSORTdb |
http://db.psort.org |
NA |
| SUBA |
http://suba.plantenergy.uwa.edu.au |
14,258 entries |
| PeroxisomeDB |
http://www.peroxisomedb.org |
2819 proteins |
| Binding and Interaction: |
|
|
| 3D Complex |
http://supfam.mrc-lmb.cam.ac.uk/elevy/3dcomplex/Home.cgi |
>30,000 structures |
| 3DID |
http://3did.irbbarcelona.org |
174,006 proteins |
| BindingDB |
http://www.bindingdb.org |
781,982 binding data |
| BioGRID |
http://thebiogrid.org |
409,299 interactions |
| BISC |
http://bisc.cse.ucsc.edu |
NA |
| DIMA |
http://webclu.bio.wzw.tum.de/dima/ |
NA |
| DIP |
http://dip.doe-mbi.ucla.edu |
71,276 interactions |
| DOMINE |
http://domine.utdallas.edu |
26,219 domain-domain interactions |
| DOMMINO |
http://dommino.org |
55,650 interactions |
| IBIS |
http://www.ncbi.nlm.nih.gov/Structure/ibis/ibis.cgi |
192,213 protein-protein interactions |
| MIPS |
http://www.helmholtz-muenchen.de/en/ibis |
NA |
| PIBASE |
http://modbase.compbio.ucsf.edu/pibase |
755,998 interfaces |
| Protein3D Home |
http://protein3d.ncifcrf.gov/tsai/ |
NA |
| ReLiBase |
http://relibase.rutgers.edu |
NA |
| SCOPPI |
http://www.scoppi.org |
15,058 interfaces |
| String |
http://string-db.org |
5,214,234 proteins |
| Energetics: |
|
|
| 3D-footprint |
http://floresta.eead.csic.es/3dfootprint/ |
2864 complexes |
| eF-site |
http://ef-site.protein.osaka-u.ac.jp/eF-site/ |
427,984 entries |
| KineticDB |
http://KineticDB.protres.ru/db/index.pl |
NA |
| ProTherm |
http://gibk26.bio.kyutech.ac.jp/jouhou/Protherm/protherm.html |
14,500 entries |
| References: |
|
|
| MEDLINE |
http://www.ncbi.nlm.nih.gov/PubMed/ |
>21,000,000 citations |
| iProLINK |
http://pir.georgetown.edu/pirwww/iprolink/ |
NA |
| Combined: |
|
|
| BioSystems |
http://www.ncbi.nlm.nih.gov/biosystems |
NA |
| Entrez |
http://www.ncbi.nlm.nih.gov/Entrez/ |
NA |
| SRS |
http://srs.ebi.ac.uk |
NA |
