Clarification on comments re AminoAcidSequenceFeature

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Need clarification on comments re AminoAcidSequenceFeature (row 20)

Current Definitions

AminoAcidSequenceFeature

DEFINITION: An annotation assigned to a defined amino acid physical location.

EXAMPLE(S): alpha helices, glycosylation sites, DNA binding domains

OTHER NAME(S):

NOTE(S):

AminoAcidSequenceFeature.typeCode

DEFINITION: A coded value that specifies a group of amino acids within a protein that confer certain characteristics upon that protein, and may be important for its overall function.

EXAMPLE(S): glycosylation site, binding site, site of post-translational modification

OTHER NAME(S):

NOTE(S): [Glycosylation Site:C16643, C37901; Binding Site:C13671]

Associations

• Included in AminoAcidPhysicalLocation
• Be reported by MolecularSequenceAnnotation

Ballot Comment

do you need a databasenamecode? Or are you restricting to a single source?

Current Disposition

Pending Input From Submitter

Proposed Disposition Comment

Need clarification - are the TYPES of amino acid sequence features (typeCode) something that is identified by a database identifier, is a CD insufficient? Or is this referring to a new attribute to capture something besides the typeCode attribute? (currently there's only one attribute in this class)

Outstanding Questions

• Is this comment suggesting that AminoAcidSequenceFeatures are captured in databases and therefore have identifiers like Proteins, Genes, Pathways, etc.?
• Currently this class only has one attribute (typeCode above) - should we add a databaseNameCode and identifier?
• Or is this comment suggesting we should change the typeCode attribute into a databaseNameCode?

Responses

Please add your responses here...

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