AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models is a dataset published in Nucleic Acids Research (2021). On theSindex it has a DataRank of 14.9, placing it in the top 12.9% of the data-sharing corpus. It has been cited 8,161 times, with 191 citing works in its 1-hop citation network. Its calibrated FAIR score is 58/100.
Abstract
The AlphaFold Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) is an openly accessible, extensive database of high-accuracy protein-structure predictions. Powered by AlphaFold v2.0 of DeepMind, it has enabled an unprecedented expansion of the structural coverage of the known protein-sequence space. AlphaFold DB provides programmatic access to and interactive visualization of predicted atomic coordinates, per-residue and pairwise model-confidence estimates and predicted aligned errors. The initial release of AlphaFold DB contains over 360,000 predicted structures across 21 model-organism proteomes, which will soon be expanded to cover most of the (over 100 million) representative sequences from the UniRef90 data set.
›Data sources & pipeline
FAIR Checklist
Context only (not used in score)- Has DOI
- Open Access
- Dataset classification
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
DataRank Breakdown
Base Score Contribution
1.3
From this paper's citation signal
Citation Network Contribution
13.5
From 191 citing papers with measurable signal
Top 5 citers driving the network score
Ranked by citation count — the same ordering the engine uses when summing log1p(Cq) over citers.
- Highly accurate protein structure prediction with AlphaFoldNature202143,672 citationsDataRank 1.6
- Evolutionary-scale prediction of atomic-level protein structure with a language modelScience20234,605 citationsDataRank 1.3
- Ensembl 2023Nucleic Acids Research20231,082 citationsDataRank 7.6Top 24%
- A partnership between the lipid scramblase XK and the lipid transfer protein VPS13A at the plasma membraneProceedings of the National Academy of Sciences202274 citationsDataRank 2.2
- Protein amyloid aggregate: Structure and functionAggregate202348 citationsDataRank 1.3
Why this DataRank?
DataRank blends this paper's own citation count with the influence of the papers that cite it. Here, roughly 9% comes from its base citations and 91% from the citation network (191 citing papers contributed measurable signal).
- Base score B(p)
- log1p(citation_count) — grows sub-linearly, so a paper with 1,000 citations is not 10× a paper with 100.
- Network N(p)
- Σ over citers of log1p(Cq) ÷ max(outdegreeq, 1). Being cited by a highly-cited paper with few references counts most.
- Damping factor d = 0.85
- DataRank = (1−d)·B(p) + d·N(p) — the two cards above are each already multiplied by their share.
- Self-citations excluded
- Citers sharing any OpenAlex author ID with this paper are filtered out before the network sum.
Citers are pulled from OpenAlex sorted by cited_by_count:descand capped per paper, so when the cap binds we keep the highest-signal references and the score is reproducible across reruns.
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