The Proteomics Standards Initiative modification ontology (PSI-MOD) aims to define a concensus nomenclature and ontology reconciling, in a hierarchical representation, the complementary descriptions of residue modifications.

Prefix

mod

Preferred Prefix

MOD

Alternative Prefixes

PSI-MOD

Keywords

enzymatic reaction life science molecule obo ontology protein structure

Version

1.031.6

License

CC-BY-4.0

Links

Homepage Repository OBO OWL

Contact

Pierre-Alain Binz   0000-0002-0045-7698   pabinz

Pattern for Local Unique Identifiers

Local identifiers in Protein modification should match this regular expression:
^\d{5}$

Example Local Unique Identifier

01467   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Protein modification should match this regular expression:
^MOD:\d{5}$

Example CURIE

MOD:01467

MIRIAM Namespace Embedded in LUI

The legacy MIRIAM standard for generating CURIEs with this resource annotates the namespaceEmbeddedInLUI as true. This means that you may see local unique identifiers that include a redundant prefix and delimiter (also known as a banana) and therefore look like a CURIE. For Protein modification, the banana looks like MOD:. Therefore, you may see local unique identifiers for this resource that look like MOD:01467 (instead of the canonical form 01467) and CURIEs for this resource that look like MOD:MOD:01467 (instead of the canonical form MOD:01467). The Bioregistry will automatically strip off the banana when standardizing local unique identifiers and CURIEs.

Publications

2008 The PSI-MOD community standard for representation of protein modification data

A summary of the relations in the Bioregistry schema can be found here.

In Collection

NFDI4Chem Collection

The metaregistry provides mappings between the Bioregistry and other registries. There are 11 mappings to external registries for this resource with 5 unique external prefixes.

When using this resource in RDF, the following URI format should be used:

http://purl.obolibrary.org/obo/MOD_$1

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 01467 is used to demonstrate the providers available for Protein modification. A guide for curating additional providers can be found here.

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.