Downloads
The AlphaFold DB website currently provides bulk downloads for the 48 organisms listed below, as well as the majority of Swiss-Prot.
You can download a prediction for an individual UniProt accession by visiting the corresponding structure page (example: https://www.alphafold.ebi.ac.uk/entry/F4HVG8).
For downloading all predictions for a given species, use the download links below. Note that this option is only available on the desktop version of the site.
The uncompressed archive files (.tar) contain all the available compressed PDB and mmCIF files (.gz) for a reference proteome. In the case of proteins longer than 2700 amino acids (aa), AlphaFold provides 1400aa long, overlapping fragments. For example, Titin has predicted fragment structures named as Q8WZ42-F1 (residues 1–1400), Q8WZ42-F2 (residues 201–1600), etc. These fragments are currently only available for the human proteome in these proteome archive files, not on the website.
For downloading predictions for all the species in the tables below, visit the FTP site: https://ftp.ebi.ac.uk/pub/databases/alphafold
Compressed prediction files for model organism proteomes:
Species | Common Name | Reference Proteome | Predicted Structures | Download |
---|---|---|---|---|
Arabidopsis thaliana | Arabidopsis | UP000006548 | 27,434 | Download (3,719 MB) |
Caenorhabditis elegans | Nematode worm | UP000001940 | 19,694 | Download (2,655 MB) |
Candida albicans | C. albicans | UP000000559 | 5,974 | Download (985 MB) |
Danio rerio | Zebrafish | UP000000437 | 24,664 | Download (4,224 MB) |
Dictyostelium discoideum | Dictyostelium | UP000002195 | 12,622 | Download (2,193 MB) |
Drosophila melanogaster | Fruit fly | UP000000803 | 13,458 | Download (2,218 MB) |
Escherichia coli | E. coli | UP000000625 | 4,363 | Download (458 MB) |
Glycine max | Soybean | UP000008827 | 55,799 | Download (7,293 MB) |
Homo sapiens | Human | UP000005640 | 23,391 | Download (4,877 MB) |
Methanocaldococcus jannaschii | M. jannaschii | UP000000805 | 1,773 | Download (174 MB) |
Mus musculus | Mouse | UP000000589 | 21,615 | Download (3,619 MB) |
Oryza sativa | Asian rice | UP000059680 | 43,649 | Download (4,516 MB) |
Rattus norvegicus | Rat | UP000002494 | 21,270 | Download (3,473 MB) |
Saccharomyces cerevisiae | Budding yeast | UP000002311 | 6,039 | Download (979 MB) |
Schizosaccharomyces pombe | Fission yeast | UP000002485 | 5,128 | Download (792 MB) |
Zea mays | Maize | UP000007305 | 39,299 | Download (5,122 MB) |
Compressed prediction files for global health proteomes:
Species | Common Name | Reference Proteome | Predicted Structures | Download |
---|---|---|---|---|
Ajellomyces capsulatus | Ajellomyces capsulatus | UP000001631 | 9,199 | Download (1,366 MB) |
Brugia malayi | Brugia malayi | UP000006672 | 8,743 | Download (1,288 MB) |
Campylobacter jejuni | C. jejuni | UP000000799 | 1,620 | Download (175 MB) |
Cladophialophora carrionii | Cladophialophora carrionii | UP000094526 | 11,170 | Download (1,734 MB) |
Dracunculus medinensis | Dracunculus medinensis | UP000274756 | 10,834 | Download (1,366 MB) |
Enterococcus faecium | Enterococcus faecium | UP000325664 | 2,823 | Download (289 MB) |
Fonsecaea pedrosoi | Fonsecaea pedrosoi | UP000053029 | 12,509 | Download (2,020 MB) |
Haemophilus influenzae | H. influenzae | UP000000579 | 1,662 | Download (176 MB) |
Helicobacter pylori | H. pylori | UP000000429 | 1,538 | Download (167 MB) |
Klebsiella pneumoniae | K. pneumoniae | UP000007841 | 5,727 | Download (561 MB) |
Leishmania infantum | L. infantum | UP000008153 | 7,924 | Download (1,511 MB) |
Madurella mycetomatis | Madurella mycetomatis | UP000078237 | 9,561 | Download (1,541 MB) |
Mycobacterium leprae | Mycobacterium leprae | UP000000806 | 1,602 | Download (177 MB) |
Mycobacterium tuberculosis | M. tuberculosis | UP000001584 | 3,988 | Download (431 MB) |
Mycobacterium ulcerans | Mycobacterium ulcerans | UP000020681 | 9,033 | Download (584 MB) |
Neisseria gonorrhoeae | N. gonorrhoeae | UP000000535 | 2,106 | Download (196 MB) |
Nocardia brasiliensis | Nocardia brasiliensis | UP000006304 | 8,372 | Download (874 MB) |
Onchocerca volvulus | Onchocerca volvulus | UP000024404 | 12,047 | Download (1,624 MB) |
Paracoccidioides lutzii | Paracoccidioides lutzii | UP000002059 | 8,794 | Download (1,298 MB) |
Plasmodium falciparum | P. falciparum | UP000001450 | 5,187 | Download (1,152 MB) |
Pseudomonas aeruginosa | P. aeruginosa | UP000002438 | 5,556 | Download (615 MB) |
Salmonella typhimurium | S. typhimurium | UP000001014 | 4,526 | Download (479 MB) |
Schistosoma mansoni | Schistosoma mansoni | UP000008854 | 13,865 | Download (2,549 MB) |
Shigella dysenteriae | S. dysenteriae | UP000002716 | 3,893 | Download (375 MB) |
Sporothrix schenckii | Sporothrix schenckii | UP000018087 | 8,652 | Download (1,523 MB) |
Staphylococcus aureus | S. aureus | UP000008816 | 2,888 | Download (275 MB) |
Streptococcus pneumoniae | S. pneumoniae | UP000000586 | 2,030 | Download (203 MB) |
Strongyloides stercoralis | Strongyloides stercoralis | UP000035681 | 12,613 | Download (1,898 MB) |
Trichuris trichiura | Trichuris trichiura | UP000030665 | 9,564 | Download (1,365 MB) |
Trypanosoma brucei | Trypanosoma brucei | UP000008524 | 8,491 | Download (1,348 MB) |
Trypanosoma cruzi | T. cruzi | UP000002296 | 19,036 | Download (2,965 MB) |
Wuchereria bancrofti | Wuchereria bancrofti | UP000270924 | 12,721 | Download (1,420 MB) |
Compressed prediction files for Swiss-Prot:
File type | Predicted Structures | Download |
---|---|---|
Swiss-Prot (CIF files) | 542,378 | Download (37,643 MB) |
Swiss-Prot (PDB files) | 542,378 | Download (26,935 MB) |
MANE Select dataset:
File type | Predicted Structures | Download |
---|---|---|
Overlap with MANE | 17,334 | Download (3,028 MB) |
Full dataset download for AlphaFold Database - UniProt (214M):
The full dataset of all predictions is available at no cost and under a CC-BY-4.0 licence from Google Cloud Public Datasets. We've grouped this by single-species for ease of downloading subsets or all of the data. We suggest that you only download the full dataset if you need to process all the data with local computing resources (the size of the dataset is 23 TiB, ~1M tar files). Please see our guide for how to best download and query the data or reach out to alphafold@deepmind.com for further assistance.
Licence and attribution
Data is available for academic and commercial use, under a CC-BY-4.0 licence.
EMBL-EBI expects attribution (e.g. in publications, services or products) for any of its online services, databases or software in accordance with good scientific practice.
If you make use of an AlphaFold prediction, please cite the following papers: Jumper, J et al. Highly accurate protein structure prediction with AlphaFold. Nature (2021).
Varadi, M et al. AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences. Nucleic Acids Research (2024).
If you use data from AlphaMissense in your work, please cite the following paper: Cheng, J et al. Accurate proteome-wide missense variant effect prediction with AlphaMissense. Science (2023).
AlphaFold Data Copyright (2022) DeepMind Technologies Limited.
AlphaMissense Copyright (2023) DeepMind Technologies Limited.
Feedback and questions
If you want to share feedback on an AlphaFold structure prediction, please consider using the feedback buttons at the top of each structure page. If you have any questions that are not covered in the FAQs, please contact alphafold@deepmind.com. If you have feedback on the website or experience any bugs, please contact afdbhelp@ebi.ac.uk.
Disclaimer
The AlphaFold and AlphaMissense Data and other information provided on this site contain predictions with varying levels of confidence, is for theoretical modelling only and caution should be exercised in its use. It is provided 'as-is' without any warranty of any kind, whether expressed or implied. For clarity, no warranty is given that use of the information shall not infringe the rights of any third party. The information is not intended to be a substitute for professional medical advice, diagnosis, or treatment, and does not constitute medical or other professional advice. The AlphaFold and AlphaMissense Data have not been validated for, and are not approved for, any clinical use.
Use of the AlphaFold Protein Structure Database is subject to EMBL-EBI Terms of Use.