| # Source attribution |
|
|
| - SimpleFold: Wang et al., *SimpleFold: Folding Proteins is Simpler than You Think*. |
| [Paper](https://arxiv.org/abs/2509.18480), |
| [official code and target lists](https://github.com/apple-aiml-research/ml-simplefold). |
| Author target lists are identified by retrieval URL and SHA-256 in the source |
| ledger. Apple's software MIT license is not asserted to replace data licenses. |
| - AFESM: Yeo et al., *Metagenomic-scale analysis of the predicted protein structure universe*. |
| [Cluster resource](https://afesm.foldseek.com/), |
| [analysis repository](https://github.com/steineggerlab/afesm-analysis). |
| - AlphaFold Protein Structure Database: Jumper et al. and Varadi et al. |
| [AFDB](https://alphafold.ebi.ac.uk/). Downloaded AFDB structure headers specify |
| CC BY 4.0. Keep original attribution with redistributed coordinates. |
| - ESM Metagenomic Atlas: Lin et al., *Evolutionary-scale prediction of atomic-level |
| protein structure with a language model*. |
| [Source and license](https://github.com/facebookresearch/esm#license). |
| Atlas data are CC BY 4.0; copyright Meta Platforms, Inc. |
| - Protein Data Bank: [wwPDB](https://www.wwpdb.org/). |
| Each derived chain record will retain its PDB accession, chain identity, |
| initial release date, source locator, and coordinate hash. |
|
|
| The repository uses source-specific data licenses. Dataset preparation does not |
| transfer authorship of the original structures or predictions. |
|
|
| - AFDB bulk mirror: [timodonnell/afdb-1.6M](https://huggingface.co/datasets/timodonnell/afdb-1.6M), derived from AFDB-24M, pinned revision `a7ededeb7caeaef3892f40f2e4df3bb9236b02f8`. Source coordinates are AFDB v4, CC BY 4.0; source structural cluster labels originate from the Steinegger lab AFDB clustering. |
|
|
