Other
AlphaFold agent skills for Claude Code, Codex and other agents.
- skills
- 39
- Type
- Other
- Website
- alphafold.ebi.ac.uk
- Official GitHub
- google-deepmind
AlphaFold skills, ranked
Ranked by score. Sort bymost stars,trending,newest,recently updated
| # | Skill | Repository | Stars | Used in | Tokens | Auto-check | Licence | Updated |
|---|---|---|---|---|---|---|---|---|
| 1 | Retrieve and analyze AlphaFold predicted structures for a protein. | google-deepmind/ | 3.2k | 2 repos | ~1.2k | Automated safety check: Pass | Apache-2.0 | 22 days ago |
| 2 | Validate protein designs using AlphaFold2 structure prediction. | adaptyvbio/ | 163 | 4 repos | ~1.2k | Automated safety check: Pass | MIT | 3 mo ago |
| 3 | 3.Chai Structure prediction using Chai-1, a foundation model for molecular structure. | adaptyvbio/ | 163 | 4 repos | ~1.5k | Automated safety check: Pass | MIT | 3 mo ago |
| 4 | Design and run computational protein and ligand workflows on a GPU: binder and enzyme design, de novo backbone generation, inverse folding and sequence redesign, structure prediction, protein-ligand… | locbp-uzh/ | 109 | — | ~2.4k | Automated safety check: Pass | MIT | 7 days ago |
| 5 | Generate protein backbones using RFdiffusion, a diffusion-based generative model for de novo protein structure generation. | adaptyvbio/ | 163 | 4 repos | ~2.3k | Automated safety check: Pass | MIT | 3 mo ago |
| 6 | Query public biology databases and APIs including UniProt, RCSB PDB, AlphaFold DB, ClinVar, dbSNP, gnomAD, Ensembl, GEO, InterPro, KEGG, OpenTargets, Reactome, and STRING. | DrugClaw/ | 125 | — | ~1.4k | Automated safety check: Pass | Apache-2.0 | 6 mo ago |
| 7 | 7.Gget CLI/Python toolkit for rapid bioinformatics queries. An agent skill from davila7/claude-code-templates. | davila7/ | 32k | 11 repos | ~6.3k | Automated safety check: Pass | MIT | today |
| 8 | Access AlphaFold's 200M+ AI-predicted protein structures. An agent skill from davila7/claude-code-templates. | davila7/ | 32k | 10 repos | ~4k | Automated safety check: Pass | MIT | today |
| 9 | 9.Pymol Visualize, analyze, and render protein and molecular structures using PyMOL. | google-deepmind/ | 3.2k | 2 repos | ~1.6k | Automated safety check: Pass | Apache-2.0 | 22 days ago |
| 10 | Manage academic citations across BibTeX, APA, MLA, and Chicago formats | wentorai/ | 298 | 1 repo | ~2.7k | Automated safety check: Pass | MIT | 3 mo ago |
| 11 | 11.Boltz Structure prediction using Boltz-1/Boltz-2, an open biomolecular structure predictor. | adaptyvbio/ | 163 | 4 repos | ~1.3k | Automated safety check: Pass | MIT | 3 mo ago |
| 12 | Performs 3D structural searches of proteins against various databases (PDB, AlphaFold, CATH, MGnify, etc.) using the Foldseek API. | google-deepmind/ | 3.2k | 1 repo | ~1.3k | Automated safety check: Pass | Apache-2.0 | 22 days ago |
| 13 | This skill channels the strategic and scientific reasoning of Demis Hassabis, CEO and co-founder of Google DeepMind, AlphaGo and AlphaFold, and 2024 Nobel Prize in Chemistry. | K-Dense-AI/ | 282 | — | ~2k | Automated safety check: Pass | MIT | 1 mo ago |
| 14 | 14.Ipsae Binder design ranking using ipSAE (interprotein Score from Aligned Errors). | adaptyvbio/ | 163 | 4 repos | ~1.2k | Automated safety check: Pass | MIT | 3 mo ago |
| 15 | 15.Tamarind Provides access to a collection of open-source molecular design and structural biology tools on the Tamarind Bio platform, via its REST API or MCP server — no local GPUs required. | K-Dense-AI/ | 48k | 1 repo | ~3.4k | Automated safety check: Pass | MIT | 2 days ago |
| 16 | 16.Chai1 Structure prediction for protein, nucleic-acid, and small-molecule complexes with the Chai-1 foundation model (Chai Discovery 2024, github.com/chaidiscovery/chai-lab). | JimLiu/ | 227 | 4 repos | ~1.2k | Automated safety check: Pass | Apache-2.0 | 3 mo ago |
| 17 | 17.Alphafold3 A skill your agent uses for AlphaFold 3 input preparation, prediction command planning, output interpretation, and Python API inspection. | VectorSpaceLab/ | 328 | — | ~1.2k | Automated safety check: Pass | Apache-2.0 | 1 mo ago |
| 18 | Retrieves protein structure data from RCSB PDB, PDBe, and AlphaFold with protein disambiguation, quality assessment, and comprehensive structural profiles. | wu-yc/ | 1.1k | 2 repos | ~2.8k | Automated safety check: Pass | No licence | 6 mo ago |
| 19 | AlphaFold2 / AlphaFold-Multimer structure prediction for validation and confidence scoring. | BioTender-max/ | 197 | — | ~1.4k | Automated safety check: Pass | MIT | 3 mo ago |
| 20 | Access and analyze AlphaFold protein structure predictions. An agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. | FreedomIntelligence/ | 3.1k | 1 repo | ~2.1k | Automated safety check: Pass | No licence | 2 mo ago |
| 21 | 21.Alphafold DB Access over 200M protein structures from AlphaFold DB; use when you need to retrieve predicted 3D structures (PDB/mmCIF), confidence metrics (pLDDT/PAE), or protein metadata by UniProt accession. | aipoch/ | 2k | — | ~606 | Automated safety check: Pass | MIT | 20 days ago |
| 22 | 22.Gget Unified CLI/Python interface for querying genomic, proteomic, structure, and expression data across 20+ bioinformatics databases; use when you need fast, scriptable retrieval by gene/protein IDs or… | aipoch/ | 2k | — | ~816 | Automated safety check: Pass | MIT | 20 days ago |
| 23 | Predict B-cell and T-cell epitopes for vaccine antigen design and epitope mapping with BepiPred-3.0, DiscoTope-3.0, the IEDB tools, and EL-mode MHC presentation. | GPTomics/ | 1.2k | 1 repo | ~3.1k | Automated safety check: Pass | MIT | 1 mo ago |
| 24 | Retrieves and interprets AlphaFold Protein Structure Database (AFDB) models by UniProt accession, reading pLDDT and PAE confidence correctly. | GPTomics/ | 1.2k | 1 repo | ~4k | Automated safety check: Pass | MIT | 1 mo ago |
| 25 | Unified CLI/Python interface to 20+ genomic databases. An agent skill from jaechang-hits/SciAgent-Skills. | jaechang-hits/ | 370 | 2 repos | ~5.3k | Automated safety check: Pass | BSD-2-Clause | 8 days ago |
| 26 | Judges whether a macromolecular model (or a region of it) is reliable enough to build on, using resolution, R-free, B-factors, MolProbity geometry, and predicted-model confidence with Bio.PDB. | GPTomics/ | 1.2k | 1 repo | ~5.9k | Automated safety check: Pass | MIT | 1 mo ago |
| 27 | Access AlphaFold DB's 200M+ predicted structures by UniProt ID. | jaechang-hits/ | 370 | 1 repo | ~4.1k | Automated safety check: Pass | CC-BY-4.0 | 8 days ago |
| 28 | Look up EMDB cryo-EM density maps and fitted atomic models via the entry REST API + EBI Search WS. | jaechang-hits/ | 370 | 1 repo | ~4.9k | Automated safety check: Pass | CC-BY-4.0 | 8 days ago |
| 29 | Protein language models (ESM3, ESM C) for sequence generation, structure prediction, inverse folding, and embeddings. | jaechang-hits/ | 370 | 1 repo | ~4k | Automated safety check: Pass | MIT | 8 days ago |
| 30 | Query UniProt REST API: search by gene/protein name, fetch FASTA, map IDs (Ensembl, PDB, RefSeq), access Swiss-Prot annotations. | jaechang-hits/ | 370 | 1 repo | ~3.4k | Automated safety check: Pass | CC-BY-4.0 | 8 days ago |
| 31 | Query AlphaFold protein structure predictions by UniProt accession | wentorai/ | 298 | 1 repo | ~2k | Automated safety check: Pass | MIT | 3 mo ago |
| 32 | Local protein structure prediction with AlphaFold, Boltz, or Chai. | majiayu000/ | 666 | 2 repos | ~406 | Automated safety check: Pass | MIT | today |
| 33 | Search the protein information from the input gene name and downloads the optimal PDB or AlphaFold structures. | InternScience/ | 169 | 1 repo | ~789 | Automated safety check: Pass | MIT | 4 mo ago |
| 34 | 34.Pdb Database Query RCSB PDB (200K+ structures) via the public REST + GraphQL APIs with plain requests (no SDK). | jaechang-hits/ | 370 | 1 repo | ~7.7k | Automated safety check: Pass | BSD-3-Clause | 8 days ago |
| 35 | Search 78 public scientific, biomedical, materials science, and economic databases via REST APIs. | majiayu000/ | 666 | 1 repo | ~7k | Automated safety check: Notes | MIT | today |
| 36 | Build, validate, convert, and troubleshoot AlphaFold 3 input JSON files before prediction runs. | VectorSpaceLab/ | 328 | — | ~619 | Automated safety check: Pass | Apache-2.0 | 1 mo ago |
| 37 | 24 biomedical research skills. An agent skill from wentorai/research-plugins. | wentorai/ | 298 | 1 repo | ~827 | Automated safety check: Pass | MIT | 3 mo ago |
| 38 | 38.Alphafold A skill your agent uses when running AlphaFold2 predictions on custom protein sequences, validating designed sequences via self-consistency, predicting binder-target complexes, or interpreting AF2… | lamm-mit/ | 244 | — | ~1.1k | Automated safety check: Pass | Apache-2.0 | 1 mo ago |
| 39 | ToolUniverse workflow — Protein Structure Retrieval. An agent skill from lamm-mit/scienceclaw. | lamm-mit/ | 244 | — | ~2.8k | Automated safety check: Pass | Apache-2.0 | 1 mo ago |
Questions, answered from the data.
What is the best AlphaFold skill?
Alphafold Database Fetch And Analyze from google-deepmind/science-skills ranks first of the 39 AlphaFold skills listed here, with the highest score: its repository has 3.2k GitHub stars, 2 other GitHub owners carry a copy, its SKILL.md loads about 1.2k tokens and it passes the automated safety check with no findings. Next come Alphafold and Chai.
Is there an official AlphaFold skill?
None yet. All 39 AlphaFold skills listed here come from community repositories; a skill counts as official when the product's own GitHub organization publishes it.
How are these skills ranked?
By Skill Navigator score, which combines the GitHub stars of the skill's repository (shared across that repo's skills and discounted for large collections), how many other GitHub owners carry a copy of the skill, and automated SKILL.md quality checks, minus penalties for safety-check warnings and for each further skill from the same repository. Skills that fail the safety check are not listed.