Table 1.
UniProtKB sequence annotations in track hubs. Annotation types, descriptions and current number of each feature mapped to the human genome are shown. UniProtKB release 2018_01 (Jan 2018) was used for this table. For more information on sequence features in UniProtKB see (www.uniprot.org/help/sequence_annotation)
| Annotation type | Description (feature_name) | Features mapped | |
|---|---|---|---|
| Molecule processing | Proteome | Location of complete protein and isoform sequences (proteome) | 112,093 |
| Signal | Sequence targeting proteins to the secretory pathway or periplasmic space (signal) | 10,360 | |
| Transit peptide | Extent of a transit peptide for organelle targeting (transit) | 482 | |
| Chain | Extent of a polypeptide chain in the mature protein (chain) | 25,339 | |
| Peptide | Extent of an active peptide in the mature protein (peptide) | 383 | |
| Propeptide | Peptide that is cleaved during maturation or activation (propep) | 802 | |
| Initiator met | Cleavage of the initiator methionine (init_met) | 1,992 | |
| Regions | Topological domain | Location of non‐membrane regions of membrane‐spanning proteins (topo_dom) | 18,773 |
| Transmembrane | Extent of a membrane‐spanning region (transmem) | 43,734 | |
| Intramembrane | Extent of a region located in a membrane without crossing it (intramem) | 329 | |
| Domain | Position and type of each modular protein domain (domain) | 66,315 | |
| Repeat | Positions of repeated sequence motifs or domains (repeat) | 19,314 | |
| Calcium binding | Position(s) of calcium binding region(s) within the protein (ca_bind) | 731 | |
| Zinc finger | Position(s) and type(s) of zinc fingers within the protein (zn_fing) | 9,127 | |
| DNA binding | Position and type of a DNA‐binding domain (dna_bind) | 1,267 | |
| Nucleotide binding | Nucleotide phosphate binding region (np_bind) | 3,826 | |
| Region | Region of interest in the sequence (region) | 9,894 | |
| Coiled coil | Positions of regions of coiled coil within the protein (coiled) | 16,909 | |
| Motif | Short (up to 20 aa) sequence motif of biological interest (motif) | 3,332 | |
| Sites | Active site | Amino acids directly involved in the activity of an enzyme (act_site) | 4,190 |
| Metal binding | Binding site for a metal ion (metal) | 3,031 | |
| Binding site | Binding site for any chemical group (binding) | 6,275 | |
| Site | Any interesting single amino acid site on the sequence (site) | 2,183 | |
| Amino acid modifications | Modified residue | Modified residues excluding lipids, glycans & cross‐links (mod_res) | 54,743 |
| Lipidation | Covalently attached lipid group(s) (lipid) | 1,035 | |
| Glycosylation | Covalently attached glycan group(s) (carbohyd) | 16,474 | |
| Disulfide bond | Cysteine residues participating in disulfide bonds (disulfid) | 19,816 | |
| Cross‐link | Residues in covalent linkage between proteins (crosslnk) | 6,829 | |
| Non‐standard residue | occurrence of non‐standard amino acids (selenocysteine & pyrrolysine) in the protein sequence (non_std) | 36 | |
| Structure | Helix | Helical regions in the experimentally determined structure (helix) | 57,596 |
| Turn | Turns within the experimentally determined protein structure (turn) | 14,813 | |
| Beta strand | Beta strand regions within the experimentally determined protein structure (strand) | 63,579 | |
| Variants | Mutagenesis | Sites experimentally altered by mutagenesis (mutagen) | 20,335 |
| Natural variant | Description of a natural variant of the protein (variant) | 76,678 | |