How to find the most representative protein data base ID for your protein?

Question

[amy__]

Hello,

I am trying to find the most representative protein model for a set of genes - for example DNA polymerase epsilon catalytic subunit A from the human gene POLE.

I have searched the protein data base but it comes up with thousands of options - does anyone have any advice? Ideally this will be so I can map some variants on using pymol.

Thanks! Amy

Answer 1

[GenoMax]

Option 1:

Use MANE select proteins that you can download here (latest release as of today will keep changing) : https://ftp.ncbi.nlm.nih.gov/refseq/MANE/MANE_human/release_1.2/MANE.GRCh38.v1.2.refseq_protein.faa.gz

You can read about the project here: https://www.ncbi.nlm.nih.gov/refseq/MANE/

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Option 2:

Reviewed human proteins from Human proteome from UniProt: https://www.uniprot.org/uniprotkb?facets=reviewed:true&query=(taxonomy_id:9606)

NOTE: Biostars code is removing the closing parenthesis ()) at the end of that link so please add that manually. Otherwise the link will not work.