ELM Downloads

Below you'll find examples of the different ways that can be used to query ELM programmatically. No special client is needed for this just a browser or maybe "curl"/"wget" for scripted access. By using these access methods you implicitly agree to using/distributing this data according to the ELM Software License Agreement.

ClassesLast modified on: June 29, 2017, 2:31 p.m.

Here you can download a list of ELM classes, either all at once or limit the list by providing a query term "q".

Name	Example	URL
all	html	/elms/elm_index.html
all	tsv	/elms/elms_index.tsv
by query term	tsv	/elms/elms_index.tsv?q=PCSK
by ELM id	html	/ELME000012.html

InstancesLast modified on: June 26, 2017, 5:34 p.m.

Annotated ELM instances can be queried in a variety of ways. You are encouraged to use the search form to get a feeling for the parameters. Common examples include limiting the query by either instance logic or taxon.

Name	Example	URL
all	html	/elms/instances.html?q=*
by Uniprot acc	fasta	instances.fasta?q=P12931
by Uniprot name	gff	instances.gff?q=SRC_HUMAN
by Uniprot acc	tsv	instances.tsv?q=P12931
by query term	pir	instances.pir?q=PCSK
by query term	tsv	instances.tsv?q=src
by query term	mitab	instances.mitab?q=src
by query term	xml	instances.psimi?q=src
by query term using additional parameter "instance logic"	tsv	instances.tsv?q=src&instance_logic=true+positive
by Instance id	html	/ELMI000123.html
All docking motifs annotated in taxon "mouse"	tsv	instances.tsv?q=DOC_&taxon=mus+musculus

InteractionsLast modified on: Feb. 23, 2017, 11:22 a.m.

Interactions between annotated ELM instances and the corresponding globular interaction partner can be queried as follows. Data is provided either in simple TSV (tab-separated values), PsiMi XML or in MiTAB format.

Name	Example	URL
all interactions	tsv	/interactions/as_tsv
all interactions	mitab	/interactions/as_mitab
all interactions	psimi	/interactions/as_psimi
all interactions from certain taxon	mitab	/interactions/as_mitab?taxon=mus%20musculus
by Interaction id	mitab	/interactions/ELMINT000120.mitab
by Interaction id	xml	/interactions/ELMINT000120.xml
by Uniprot acc	mitab	/interactions/P33379.mitab
by Uniprot acc	xml	/interactions/P02751.xml

Interaction DomainsLast modified on: Nov. 11, 2016, 2:23 p.m.

List of all domains annotated as interacting with one or more ELM class.

Name	Example	URL
all interaction domains	html	/infos/browse_elm_interactiondomains.html
all interaction domains	tsv	/infos/browse_elm_interactiondomains.tsv

MethodsLast modified on: June 26, 2017, 5:12 p.m.

The following table holds all methods which have been used during the ELM rigourous data curation process.

Name	Example	URL
all methods	html	/infos/browse_elm_methods.html
all methods	tsv	/infos/browse_elm_methods.tsv

PDBsLast modified on: June 26, 2017, 5:34 p.m.

The following table holds all PDBs which are annotated in the ELM database.

Name	Example	URL
all PDBs	html	/pdbs/
all PDBs	tsv	/pdbs.tsv

GOTermsLast modified on: June 23, 2017, 7:22 a.m.

The following table shows the GOTerms which are annotated per ELM class.

Name	Example	URL
all GOTerms	html	/goterms
all GOTerms	tsv	/goterms.tsv

Renamed ELM classesLast modified on: June 20, 2016, 4:45 p.m.

The following table holds all ELM classes that have been renamed in the past.

Name	Example	URL
all renamed ELM classes	tsv	/infos/browse_renamed.tsv

Media / Files

• elm_template.doc (Template used to annotate novel ELM classes)
• elm_template.xls (Template used to collect and annotate ELM instances)
• switches.elm_ALG2.mp4 A movie about a molecular switch involved in the formation of the ALG2/Alix complex:

If you're missing a particular format or would like to suggest some changes, please don't hesitate to contact the ELM webmaster.