Table 3.
Sequence annotations included as node attributes in SSNs produced by EFI-EST.
| Node Attribute | Description |
|---|---|
| ACC1 | UniProt accession(s) |
| Uniprot_ID | UniProt ID(s) |
| GN | gene name(s) |
| GI | GI numbers |
| STATUS | reviewed – manually annotated, in Swiss-Prot; unreviewed automatically annotated, in TrEMBL |
| Description | protein name(s)/annotation(s) in UniProtKB |
| SwissProt_Description | protein name(s)/annotation(s) in UniProtKB for SwissProt reviewed entries |
| IPRO | InterPro family(ies) |
| PFAM | Pfam family(ies) |
| PDB | Protein Data Bank entry |
| CAZY | Carbohydrate-Active enZYmes (CAZy) family name(s) |
| EC | EC number(s) |
| GO | Gene Ontology classification(s) |
| Sequence_Length | number(s) of amino acid residues |
| Domain | domain of life to which the organism(s) belong(s) |
| PHYLUM | Phylogenetic phylum/phyla of the organism(s) |
| CLASS | Phylogenetic class(es) of the organism(s) |
| ORDER | Phylogenetic order(s) of the organism(s) |
| FAMILY | Phylogenetic family(ies) of the organism(s) |
| GENUS | Phylogenetic genus/genera of the organism(s) |
| SPECIES | Phylogenetic species of the organism(s) |
| Organism | organism genus/genera and species |
| Taxonomy_ID | NCBI taxonomy identifier(s) |
| HMP_Body_Site | location(s) of organism(s) in/on the body, if human microbiome organism |
| HMP_Oxygen | oxygen requirement(s), if human microbiome organism |
| EFI_ID | Enzyme Function Initiative database ID(s) |
| GDNA | availability of gDNA(s) at EFI Protein Core |
| Shared name | Full network – UniProt accession; Rep Node network – UniProt accession for the longest sequence in the representative node |
| name | UniProt accession for the longest sequence in the representative node |
| Cluster Size1 | number of proteins represented by the representative node |
1
Representative node SSNs only