Registry UniProt Post-Translational Modification

The post-translational modifications used in the UniProt knowledgebase (Swiss-Prot and TrEMBL). The definition of the post-translational modifications usage as well as other information is provided in the following format

Prefix: uniprot.ptm
Alternative Prefixes: PTM
Keywords: biochemistry ontology post-translational modification structural biology
License: CC-BY-4.0
Links: Homepage OBO OWL OBO JSON
References: Other https://twitter.com/cthoyt/status/1510570256619778053; Other https://www.uniprot.org/docs/ptmlist.txt

Identifier Standards

Pattern for Local Unique Identifiers: Local identifiers in UniProt Post-Translational Modification should match this regular expression:
^PTM-\d{4}$
Example Local Unique Identifier: PTM-0450 Resolve
Pattern for CURIES: Compact URIs (CURIEs) constructed from UniProt Post-Translational Modification should match this regular expression:
^uniprot\.ptm:PTM-\d{4}$
Example CURIE: uniprot.ptm:PTM-0450

Contacts

Mailing List

Contact: Alex Bateman 0000-0002-6982-4660 bateman-research
Contributors: submitter Charles Tapley Hoyt 0000-0003-4423-4370 cthoyt; contributor Benjamin M. Gyori 0000-0001-9439-5346 bgyori

Providers

Suggest

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier PTM-0450 is used to demonstrate the providers available for UniProt Post-Translational Modification. Some providers may use a different example, which is displayed in the table below. A guide for curating additional providers can be found here.

Provider Name	Provider Code	URI
UniProt Post-Translational Modification	`uniprot.ptm`	https://biopragmatics.github.io/providers/uniprot.ptm/PTM-0450
Bioregistry	`bioregistry`	https://bioregistry.io/uniprot.ptm:PTM-0450

Normalize prefixes. This can be any capitalization or punctuation variant of the synonyms listed below.

>>> import bioregistry as br
>>> br.normalize_prefix("PTM")
'uniprot.ptm'

Get all synonyms:

>>> import bioregistry as br
>>> br.get_synonyms("uniprot.ptm")
{'PTM'}

This name annotation was originally annotated in Bioregistry and is redistributed under the CC0 license.

Get the name:

>>> import bioregistry as br
>>> br.get_name("uniprot.ptm")
'UniProt Post-Translational Modification'

Get the license:

>>> import bioregistry as br
>>> br.get_license("uniprot.ptm")
'CC-BY-4.0'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("uniprot.ptm")
'https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/complete/docs/ptmlist'

Get the OBO download link:

>>> import bioregistry as br
>>> br.get_obo_download("uniprot.ptm")
'https://w3id.org/biopragmatics/resources/uniprot.ptm/uniprot.ptm.obo'

Get the OWL download link:

>>> import bioregistry as br
>>> br.get_owl_download("uniprot.ptm")
'https://w3id.org/biopragmatics/resources/uniprot.ptm/uniprot.ptm.owl'

Get the JSON download link:

>>> import bioregistry as br
>>> br.get_json_download("uniprot.ptm")
'https://w3id.org/biopragmatics/resources/uniprot.ptm/uniprot.ptm.json'

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("uniprot.ptm")
'Alex Bateman'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("uniprot.ptm")
'agb@ebi.ac.uk'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("uniprot.ptm")
'bateman-research'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("uniprot.ptm")
'0000-0002-6982-4660'