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Service Retirement

The EMBL-EBI SRS service was decommissioned on Thursday 19th December 2013. The tables below detail alternative services which provide access to the databanks and tools which have been available in SRS@EMBL-EBI.

For services provided by EMBL-EBI, please see EMBL-EBI Services. User with a programmatic/systematic usage requirement should also see the EMBL-EBI Web Services.

Instem, the developers of SRS, maintain a list of public SRS servers containing details of the databanks and tools provided by each SRS server. Users who require access via SRS should see the list to find alternative SRS servers.

If you have any queries about the retirement of the EMBL-EBI SRS service, please contact us via EMBL-EBI Support.

Databanks

Alternative sites which provide access to data which appeared in the SRS databanks, or provide equivalent data:

Library GroupDatabank NameAlternative Site
Active protein sequence databasesBCIPEPhttp://www.imtech.res.in/raghava/bcipep/
EPO_PRTsee PATENT_PRT
IPIftp://ftp.ebi.ac.uk/pub/databases/IPI/
IPIHISTORYftp://ftp.ebi.ac.uk/pub/databases/IPI/
JPO_PRTsee PATENT_PRT
KIPO_PRTsee PATENT_PRT
NRPL1http://www.ebi.ac.uk/patentdata/nr/, EBI Search/EB-eye, dbfetch/WSDbfetch
NRPL2http://www.ebi.ac.uk/patentdata/nr/, EBI Search/EB-eye, dbfetch/WSDbfetch
PATENT_PRThttp://www.ebi.ac.uk/patentdata/proteins, EBI Search/EB-eye, dbfetch/WSDbfetch
REFSEQPsee REFSEQ
REFSEQPROTNEWsee REFSEQ
REFSEQPROTRELsee REFSEQ
SWISSCHANGEhttp://www.uniprot.org/docs/humpvar.txt, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/swisschange/
USPO_PRTsee PATENT_PRT
CABRI - Animal and Human Cell LinesDSMZ_MUTZhttp://www.cabri.org/
ECACC_CELLhttp://www.cabri.org/
ICLChttp://www.cabri.org/
CABRI - BacteriaBCCM_LMGhttp://www.cabri.org/
CABI_BACThttp://www.cabri.org/
CBS_BACThttp://www.cabri.org/
CIP_BACThttp://www.cabri.org/
DSMZ_BACThttp://www.cabri.org/
NCCB_BACThttp://www.cabri.org/
NCIMB_BACThttp://www.cabri.org/
CABRI - DNA ProbesECACC_DNA_PROBEShttp://www.cabri.org/
CABRI - Fungi and YeastsBCCM_IHEMhttp://www.cabri.org/
BCCM_MUCLhttp://www.cabri.org/
CABI_FILhttp://www.cabri.org/
CABI_YEASThttp://www.cabri.org/
CBS_FILhttp://www.cabri.org/
CBS_YEASThttp://www.cabri.org/
DSMZ_FUNGIhttp://www.cabri.org/
CABRI - HLA typed B Cell LinesECACC_HLAhttp://www.cabri.org/
CABRI - HybridomasECACC_HYBRIDhttp://www.cabri.org/
CABRI - PhagesDSMZ_PHAGEShttp://www.cabri.org/
NCCB_PHAGEShttp://www.cabri.org/
NCIMB_PHAGEShttp://www.cabri.org/
CABRI - Plant CellsDSMZ_PLANT_CELLhttp://www.cabri.org/
CABRI - Plant VirusesDSMZ_PLANT_VIRUSEShttp://www.cabri.org/
CABRI - PlasmidsBCCM_LMBPhttp://www.cabri.org/
DSMZ_PLASMIDhttp://www.cabri.org/
NCCB_PLASMIDhttp://www.cabri.org/
Deprecated Protein DatabasesPIRhttp://pir.georgetown.edu/pirwww/dbinfo/pir_psd.shtml
REMTREMBLsee UNIPARC
SWALLhttp://www.uniprot.org/, ftp://ftp.ebi.ac.uk/pub/databases/uniprot/ EBI Search/EB-eye, dbfetch/WSDbfetch
SWISSNEWsee SWALL
TREMBLNEWsee SWALL
EMBLCDS Grouped ByEMBL_CDS_NRsee CDSCLUSTERS
EMBLCDSBYGENENAME 
EMBLCDSBYEXON 
EMBLCDSBYINFERENCE 
EMBOSS Source CodeEDATAftp://emboss.open-bio.org/pub/EMBOSS/efunc/
EDATARELftp://emboss.open-bio.org/pub/EMBOSS/efuncrel/
EFUNCftp://emboss.open-bio.org/pub/EMBOSS/efunc/
EFUNCRELftp://emboss.open-bio.org/pub/EMBOSS/efuncrel/
Enzymes, reactions and metabolic pathwaysEMP 
ENZYMEhttp://enzyme.expasy.org/, IntEnz, EBI Search/EB-eye
LCOMPOUNDhttp://www.genome.jp/ligand/
LENZYMEhttp://www.genome.jp/ligand/
LREACTIONhttp://www.genome.jp/ligand/
MPW2 
PATHWAYhttp://www.genome.jp/kegg/pathway.html
UCOMPOUNDhttp://umbbd.ethz.ch/
UENZYMEhttp://umbbd.ethz.ch/
UIMAGEMAPhttp://umbbd.ethz.ch/
UPATHWAYhttp://umbbd.ethz.ch/
UREACTIONhttp://umbbd.ethz.ch/
EUROFIRDKhttp://www.eurofir.net/
USDADERIVCODEhttp://www.eurofir.net/
USDADESChttp://www.eurofir.net/
USDAFOOTNOTEhttp://www.eurofir.net/
USDAGROUPhttp://www.eurofir.net/
USDANUTDATAhttp://www.eurofir.net/
USDANUTDEFhttp://www.eurofir.net/
USDASOURCECODEhttp://www.eurofir.net/
USDASOURCEShttp://www.eurofir.net/
USDASOURCESLINKShttp://www.eurofir.net/
USDAWEIGHThttp://www.eurofir.net/
Gene DictionariesENTREZGENEhttp://www.ncbi.nlm.nih.gov/gene
HGNChttp://www.genenames.org/, EBI Search/EB-eye, dbfetch/WSDbfetch
HSAGENEShttp://www.genenames.org/, EBI Search/EB-eye, dbfetch/WSDbfetch
LOCUSLINKhttp://www.ncbi.nlm.nih.gov/gene
UNIGENEhttp://www.ncbi.nlm.nih.gov/UniGene/
UNILIBftp://ftp.ncbi.nih.gov/repository/UniLib/
Gene Dictionaries and OntologiesEDAMhttp://edamontology.org/
Gene ontology resourcesGOhttp://www.geneontology.org/, QuickGO, EBI Search/EB-eye
GOAGOA, QuickGO, ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/
Literature, Bibliography and Reference DatabasesGENETICCODEhttp://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi
MEDLINEEurope PubMed Central, PubMed Central, PubMed Central Canada, PubMed, EBI Search/EB-eye, dbfetch/WSDbfetch
MEDLINE2005see MEDLINE
MEDLINE2006see MEDLINE
MEDLINE2007see MEDLINE
MEDLINE2008see MEDLINE
MEDLINE2009see MEDLINE
MEDLINE2010see MEDLINE
MEDLINE2011see MEDLINE
MEDLINE2012see MEDLINE
MEDLINENEWsee MEDLINE
OMIMOMIM
PATABSEurope PubMed Central, Espacenet, EBI Search/EB-eye
PATENTEQUIVALENTShttp://www.ebi.ac.uk/patentdata/, EBI Search/EB-eye, dbfetch/WSDbfetch
TAXONOMYftp://ftp.ebi.ac.uk/pub/databases/taxonomy/, European Nucleotide Archive (ENA), EBI Search/EB-eye, dbfetch/WSDbfetch
MED2PUBPubMed
MappingRHDBhttp://genius.embnet.dkfz-heidelberg.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+LibInfo+-lib+RHDB
RHEXPhttp://genius.embnet.dkfz-heidelberg.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+LibInfo+-lib+RHEXP
RHMAPhttp://genius.embnet.dkfz-heidelberg.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+LibInfo+-lib+RHMAP
RHPANELhttp://genius.embnet.dkfz-heidelberg.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+LibInfo+-lib+RHPANEL
MappingSubRHDBMAINhttp://genius.embnet.dkfz-heidelberg.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+LibInfo+-lib+RHDB
RHDBNEWhttp://genius.embnet.dkfz-heidelberg.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+LibInfo+-lib+RHDB
MutationsANDROGENRhttp://androgendb.mcgill.ca/, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/androgenr/
APChttp://perso.curie.fr/Thierry.Soussi/APC.html
ARCGDhttp://seconde.scripps.edu/pdfarea/issue_22_96/0109a.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
ATMhttp://www.vmmc.org/vmrc/atm.htm
BIOMDBhttp://www.bh4.org/BH4DatabasesBiomdb.asp
BTKBASEhttp://bioinf.uta.fi/BTKbase/
CFTRhttp://www.genet.sickkids.on.ca/cftr/app
CD40LBASEhttp://bioinf.uta.fi/CD40Lbase/index.html
DMDhttp://www.dmd.nl/
EMBLCHANGEftp://ftp.ebi.ac.uk/pub/databases/variantdbs/emblchange/
EMDhttp://www.path.cam.ac.uk/emd/
FANCONIhttp://www.rockefeller.edu/fanconi/mutate/
FVIIhttp://193.60.222.13/
G6PDhttp://seconde.scripps.edu/pdfarea/issue_15_97/beutler.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
GAAhttp://www.eur.nl/fgg/ch1/pompe/
GDhttp://seconde.scripps.edu/pdfarea/issue_01_98/beutler.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
GPIhttp://seconde.scripps.edu/pdfarea/issue_09_96/fujii.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
HAEMAhttp://europium.csc.mrc.ac.uk/WebPages/Main/main.htm, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/haema/
HAEMBhttp://www.kcl.ac.uk/ip/petergreen/haemBdatabase.html, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/haemb/
HBVARShttp://globin.cse.psu.edu/
HEHPhttp://seconde.scripps.edu/pdfarea/issue_20_96/0105a.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
HEREDSPHEROhttp://seconde.scripps.edu/pdfarea/issue_22_97/gallagher.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
HEXAhttp://www.debelle.mcgill.ca/hexa/
HGBASEhttps://www.gwascentral.org/, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/hgbase/
HGBASE_HAPLOTYPEsee HGBASE
HGBASE_SUBMITTERsee HGBASE
HUMAN_MITBASE 
HUMUTftp://ftp.ebi.ac.uk/pub/databases/variantdbs/humut/
IGF2Rhttp://radonc.duke.edu/~jirtle/Database
IL2RGBASEhttp://research.nhgri.nih.gov/scid/
LDLRhttp://www.ucl.ac.uk/ldlr/Current/index.php?select_db=LDLR
MUTRESftp://ftp.ebi.ac.uk/pub/databases/variantdbs/mutres/
NCLhttp://www.ucl.ac.uk/ncl/
OMIMALLELEOMIM, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/omimallele/
OMIMOFFSETOMIM
OTChttp://www.dcchildrens.com/cnmcresearch/disordersstudies/inbornerrors.aspx/
P16http://pcdnr83.uio.no/
P53http://www-p53.iarc.fr/index.html, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/p53/
P53Bhttp://p53.free.fr/
P53LINKftp://ftp.ebi.ac.uk/pub/databases/variantdbs/p53link/
PAHhttp://www.pahdb.mcgill.ca/
PAX6http://pax6.hgu.mrc.ac.uk/
PGKhttp://seconde.scripps.edu/pdfarea/issue_22_96/0108a.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
PKhttp://seconde.scripps.edu/pdfarea/issue_13_98/luciano.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
RB1http://www.verandi.de/joomla/
RDShttp://mol.ophth.uiowa.edu/MOL_WWW/Compendium.html
RHODOPSINhttp://mol.ophth.uiowa.edu/MOL_WWW/Compendium.html
TPIhttp://seconde.scripps.edu/pdfarea/issue_06_96/schneid.pdf, ftp://ftp.ebi.ac.uk/pub/databases/variantdbs/bcmd/
VWFhttp://www.vwf.group.shef.ac.uk/SSCsummary.html
XCGDBASEhttp://bioinf.uta.fi/CYBBbase/
Nucleotide related databasesCDSCLUSTERSftp://ftp.ebi.ac.uk/pub/databases/fastafiles/emblcds/
CPGISLANDEnsembl
EMBLALIGNftp://ftp.ebi.ac.uk/pub/databases/embl/align/
EPDhttp://epd.vital-it.ch/
MOUSE2HUMANhttp://www.informatics.jax.org/
REBASEhttp://rebase.neb.com/rebase/rebase.html
TFCELLhttp://www.gene-regulation.com/pub/databases.html, ftp://ftp.ebi.ac.uk/pub/databases/transfac/
TFCLASSsee TFCELL
TFFACTORsee TFCELL
TFGENEsee TFCELL
TFMATRIXsee TFCELL
TFSITEsee TFCELL
UTRhttp://utrdb.ba.itb.cnr.it/
UTRSITEhttp://utrsite.ba.itb.cnr.it/
Nucleotide sequence databasesEMBLEuropean Nucleotide Archive (ENA), ENA Sequence Version Archive, EBI Search/EB-eye, dbfetch/WSDbfetch, ftp://ftp.ebi.ac.uk/pub/databases/embl/
EMBLANNsee EMBL
EMBLCDSsee EMBL
EMBLCONsee EMBL
EMBLCONEXPsee EMBL
EMBLIDACCftp://ftp.ebi.ac.uk/pub/databases/embl/misc/entryname_to_acc.mapping
EMBLMGAsee EMBL
GENOMEREVIEWSftp://ftp.ebi.ac.uk/pub/databases/genome_reviews/
GRGENESETSftp://ftp.ebi.ac.uk/pub/databases/integr8/last_release/gene_sets/
GRTRANSCRIPTSETSftp://ftp.ebi.ac.uk/pub/databases/integr8/last_release/transcript_sets/
IMGTHLAIMGT/HLA, ftp://ftp.ebi.ac.uk/pub/databases/imgt/mhc/hla/, EBI Search/EB-eye, dbfetch/WSDbfetch
IMGTLIGMIMGT/LIGM-db, ftp://ftp.ebi.ac.uk/pub/databases/imgt/LIGM-DB/, dbfetch/WSDbfetch
IPDKIRIPD-KIR, ftp://ftp.ebi.ac.uk/pub/databases/ipd/kir/, EBI Search/EB-eye, dbfetch/WSDbfetch
IPDMHCIPD-MHC, ftp://ftp.ebi.ac.uk/pub/databases/ipd/mhc/, EBI Search/EB-eye, dbfetch/WSDbfetch
REFSEQhttp://www.ncbi.nlm.nih.gov/refseq/, dbfetch/WSDbfetch
LIVELISTSftp://ftp.ncbi.nlm.nih.gov/genbank/livelists/
NRNL1http://www.ebi.ac.uk/patentdata/nr/, EBI Search/EB-eye, dbfetch/WSDbfetch
NRNL2http://www.ebi.ac.uk/patentdata/nr/, EBI Search/EB-eye, dbfetch/WSDbfetch
PATENT_DNAsee EMBL
Nucleotide sequence databases - subsectionsEMBLANNNEWsee EMBL
EMBLANNRELEASEsee EMBL
EMBLCONNEWsee EMBL
EMBLCONRELEASEsee EMBL
EMBLCONEXPNEWsee EMBL
EMBLCONEXPRELEASEsee EMBL
EMBLDELETEDRELEASEsee EMBL
EMBLESTRELEASEsee EMBL
EMBLNEWsee EMBL
EMBLRELEASEsee EMBL
EMBLTPAsee EMBL
EMBLTSAsee EMBL
EMBLTSANEWsee EMBL
EMBLTSARELEASEsee EMBL
EMBLWGSsee EMBL
EMBLWGSMASTERSsee EMBL
EMBLWGSNEWsee EMBL
EMBLWGSRELEASEsee EMBL
ENAPROJECThttp://www.ncbi.nlm.nih.gov/bioproject, European Nucleotide Archive (ENA)
REFSEQGENNEWsee REFSEQ
REFSEQGENRELsee REFSEQ
OtherBIOCATALftp://ftp.ebi.ac.uk/pub/databases/bio_catal/
GETFT 
Protein function databasesINTERPROInterPro, EBI Search/EB-eye, dbfetch/WSDbfetch
IPRMATCHESsee IPRMC
IPRMCInterPro, ftp://ftp.ebi.ac.uk/pub/databases/interpro/, dbfetch/WSDbfetch
IPRMATCHES_ENSEMBLsee IPRMC_UNIPARC
IPRMC_UNIPARCInterPro, ftp://ftp.ebi.ac.uk/pub/databases/interpro/, dbfetch/WSDbfetch
NICEDOMhttp://prodom.prabi.fr/
PEP 
PFAMAhttp://pfam.sanger.ac.uk/
PFAMBsee PFAMA
PFAMCsee PFAMA
PFAMSEEDsee PFAMA
PRINTShttp://www.bioinf.manchester.ac.uk/dbbrowser/PRINTS/
PRODOMhttp://prodom.prabi.fr/
PROSITEhttp://prosite.expasy.org/
PROSITEDOCsee PROSITE
Protein interaction databases (IntAct)INTACTACTORIntAct, ftp://ftp.ebi.ac.uk/pub/databases/intact/ EBI Search/EB-eye
INTACTEXPsee INTACTACTOR
INTACTINTsee INTACTACTOR
Protein structure databasesDSSPhttp://swift.cmbi.ru.nl/gv/dssp/, ftp://ftp.ebi.ac.uk/pub/databases/dssp/
FSSPftp://ftp.ebi.ac.uk/pub/databases/fssp/, http://ekhidna.biocenter.helsinki.fi/dali/
HSSPhttp://swift.cmbi.ru.nl/gv/hssp/ ftp://ftp.ebi.ac.uk/pub/databases/hssp/
PDBhttp://www.pdb.org/, http://www.ebi.ac.uk/pdbe/, EBI Search/EB-eye, dbfetch/WSDbfetch
PDBFINDERhttp://swift.cmbi.ru.nl/gv/pdbfinder/, ftp://ftp.ebi.ac.uk/pub/databases/pdb_finder/
RESIDhttp://pir.georgetown.edu/resid/
SGThttp://sbkb.org/tt/
UniProt Universal Protein ResourceSWISSPROTsee UNIPROT
SPTREMBLsee UNIPROT
UNIPARCsee UNIPROT
UNIPROThttp://www.uniprot.org/, ftp://ftp.ebi.ac.uk/pub/databases/uniprot/, EBI Search/EB-eye, dbfetch/WSDbfetch
UNIPROTXMLsee UNIPROT
UNIREF100see UNIPROT
UNIREF50see UNIPROT
UNIREF90see UNIPROT

Analysis Tools

Replacement services for the anlaysis tools which were available in SRS@EMBL-EBI.

PackageTool NameAlternative Site
CLUSTALClustalW2ClustalW 2, http://www.clustal.org/
NClustalW2ClustalW 2, http://www.clustal.org/
EMBOSSallWageningen Bioinformatics EMBOSS Explorer, BIPS EMBOSS GUI, Mobyle@Pasteur, Soaplab2 Vital-IT Web Services, http://emboss.open-bio.org/
FASTAFASTAFASTA, FASTA at UVa
SSEARCHSSEARCH, FASTA at UVa
NCBI BLASTBLASTNNCBI BLAST, BLAST at NCBI
BLASTPNCBI BLAST, BLAST at NCBI
BLASTXNCBI BLAST, BLAST at NCBI
OTHERInterProScanInterPro, InterProScan 4
MPsrchSSEARCH
Restrictionmapsee EMBOSS tool remap
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