UniProt release 1.11
Published June 7, 2004
Fungi and Swiss-Prot
As we are reaching the 10'000 entries mark for fungi in Swiss-Prot, we believe it is useful to inform our users that we are actively working in speeding up the annotation and re-annotation of fungal protein sequences and most notably those originating from the two model organisms Saccharomyces cerevisiae and Schizosaccharomyces pombe. We are currently building up a fungal annotation group which will soon consist of four annotators, three in Geneva and one in Hinxton.
Changes concerning keywords
Changes concerning the controlled vocabulary for PTMs
We are continuously overhauling the annotation of post-translational modifications (PTMs). For the feature key MOD_RES, the new initially introduced controlled vocabularies for PTMs are:
Bromination: All entries with annotated bromination sites have the keyword Bromination.
Deamidated asparagine Deamidated glutamine
Formylation: All entries with annotated formylation sites have the keyword Formylation.
Hydroxylation: All entries with annotated hydroxylation sites have the keyword Hydroxylation.
Hydroxyproline 3-hydroxyasparagine 3-hydroxyaspartate 5-hydroxylysine 3-hydroxytryptophan
Iodination: All entries with annotated iodination sites have the keyword Iodination.
Other new controlled vocabularies for PTMs that are annotated with the feature key MOD_RES:
3',4'-dihydroxyphenylalanine 3-methylthioaspartic acid 3-oxoalanine (Cys) 3-oxoalanine (Ser) 4-carboxyglutamate (Keyword: Gamma-carboxyglutamic acid) ADP-ribosylarginine ADP-ribosylcysteine Allysine Aspartyl isopeptide (Asn) Cysteine persulfide Pentaglycyl murein peptidoglycan amidated threonine PolyADP-ribosyl glutamic acid Pyruvic acid (Ser) Pyruvic acid (Cys) S-nitrosocysteine (Keyword: S-nitrosylation)
Alanine derivative Arginine derivative Cysteine derivative Glutamine derivative Isoleucine derivative Lysine derivative Methionine derivative Tryptophan derivative