O-GlcNAcAtlas is a comprehensive and curated database encapsulating experimentally identified O-GlcNAc sites and proteins in the past several decades (since its discovery in the early 1980s).
O-GlcNAcAtlas offers the following useful information:
Species. Samples the original authors used to identify O-GlcNAc sites (including human, mouse, rat and other species).
Sample type. Samples the original authors used to identify O-GlcNAc sites (e.g., from different tissue/cell types).
Accession. Accession ID# for proteins in UniProt or other databases.
Entry name. Entry name for proteins in UniProt or other databases.
Protein name. Protein name shown in Uniprot or other databases.
Gene name. Gene name for proteins in Uniprot or other databases.
Peptide sequence. Modified peptide sequence experimentally identified from samples used.
Position in peptide. Modification position in the peptide sequence identified.
Position in protein. Modification position in the protein sequence.
Analytical throughput. LTP, low throughput; HTP, high throughput.
PMID. PubMed IDs which showed the identification of O-GlcNAc sites and proteins by original authors.
Comments. Comments from curators for specific proteins/peptides/sites.
To start with O-GlcNAcAtlas, you typically do the following:
Obtain the information of the protein(s) of your interest (e.g.,
accession). Peptide sequences of your interest can also be used for search directly.
Search with specific parameters. Even though there are multiple parameters for searching, more specific items (e.g.
gene symbol or
accession) of proteins are preferred. E.g., regarding the microtubule-associated protein tau,
rather than then searching the protein name ‘Tau’, using its
gene symbol (i.e., ‘mapt’) will give more specific
research results. If the
accession number of a protein is known (e.g., P10636 for the Tau protein from human, as
can be found in UniProt), searching with the
accession number (e.g., P10636) will give more specific results.
Depending on what you're looking for, it is recommended to narrow down the resulting list for items of your specific needs (e.g., the specific sites on certain proteins in a specific species). To that end, the search results can be further filtered (by adding description in the ‘Search’ tab in the results list), enabling you to hide all unnecessary data and display only the specific information you need.
The results can be easily exported (as different formats) for your usage.
Pay attention to details. There is no spell checker, so make sure to spell your search terms correctly.
Don't worry about capitalization. A search for ‘MAPT’ is the same as a search for ‘mapt’.