The Protein Annotation node retrieves the following information from the Annotation Server and includes it in the application’s results files. This information is displayed in additional columns in the result file.

  • Gene Ontology (GO) annotations—Displayed in the GO Accessions column of the result file. These include GO Slim annotations, which are displayed in the Molecular Function, Cellular Component, and Biological Process columns of the result file.
  • Protein family (Pfam) annotations—Displayed in the Pfam IDs column of the result file.
  • Gene identifications from the Entrez Gene database—Displayed in the Entrez Gene ID column of the result file.
  • Genomic annotations from the Ensembl database—Displayed in the Ensembl Gene ID and Chromosome columns on the Proteins page of the result file.
  • UniProt PTM modifications documented in the UniProt database—Displayed in the Protein Identification Details view. You can access this view from the Proteins page of the result file.

The Protein Annotation node in the consensus workflow also adds the Annotated Modifications page to the result file. For more information, see The Annotated Modifications, Found Modifications, and Unknown Modifications pages.

The Protein Annotation node connects to the Peptide and Protein Filter node.

For information on using this node in a workflow, see Adding Protein Annotation to a Workflow.

The following table describes the parameters for the Protein Annotation node.

Protein Annotation node parameters

Parameter

Definition

Aspect

Select one or more types of annotation aspects:

  • Biological Process
  • Cellular Component
  • Molecular Function
  • None: Select to create custom annotation aspects.

Protein database

Select one or more target databases for the Enrichment Chart.

Usually, these databases are the same ones used in the database searches in the processing step.