how to download all the human protein sequence at once

Question

[salvatore.raieli2]

Hi everyone,

I want to download all human protein amminoacidic sequence at once to train a machine learning model. Do you have suggestions for database where I can download the whole sequence in batch?

Best,

Salvatore

Answer 1

[GenoMax]

From UniProt as fasta file (one protein per gene) : https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/reference_proteomes/Eukaryota/UP000005640/UP000005640_9606.fasta.gz

From RefSeq at NCBI as a fasta file: https://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/annotation/GRCh38_latest/refseq_identifiers/GRCh38_latest_protein.faa.gz

[Dave Carlson]

Also the latest version from Gencode:

https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_41/gencode.v41.pc_translations.fa.gz

[salvatore.raieli2]

ok, thank you. sounds perfect