ReviewNature protocols2025
Easy and accurate protein structure prediction using ColabFold.
Review in Nature protocols, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 102 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
102 citing papers in PubMed.
- Characterization of a CYP107 family vitamin DArchives of biochemistry and biophysics · 2026Article
- A light-triggered Time-Resolved X-ray Solution Scattering (TR-XSS) workflow with application to protein conformational dynamics.FEBS open bio · 2026Article
- In silico structural and functional characterisation of two hypothetical proteins from the plant‑associated bacterium Kosakonia cowanii F52.Genomics & informatics · 2026Article
- An ancient evolutionary origin for IL-1 cytokines.Nature ecology & evolution · 2026Article
- The PucR-type activator IppR regulates 2-isopropylphenol hydroxylation in strainApplied and environmental microbiology · 2026Article
- Functional diversity of natural humanScience advances · 2026Article
- Semi-synthesis of the C-terminal region ofRSC chemical biology · 2026Article
- CG14075/Mmt promotes amino acid catabolism and cooperates with AKH during starvation in Drosophila.Nature communications · 2026Article
- A simple probabilistic AlphaFold interaction score.Protein science : a publication of the Protein Society · 2026Article
- InstructPLM-mu: protein fitness prediction from structure instructions.Briefings in bioinformatics · 2026Article
- A Bio-Inspired Authenticated Key Exchange Binding AlphaFold2 Protein Geometry to Ephemeral Elliptic-Curve Diffie-Hellman.Biomimetics (Basel, Switzerland) · 2026Article
- Structural basis for the procoagulant activity ofBiological chemistry · 2026Review
- Lactate Promotes Liver Regeneration by Increasing Fatty Acid Oxidation Through GCN5-Mediated H3K9 Lactylation.Cellular and molecular gastroenterology and hepatology · 2026Article
- Comprehensive Characterization of a Novel Broad-Host-Range LyticAntibiotics (Basel, Switzerland) · 2026Article
- Expression and Binding Characteristics of AoraPBP3 inBiology · 2026Article
- A Non-Covalent [4Fe-4S]/[2Fe] Interface in HydF Guides [FeFe]-Hydrogenase Maturation.Angewandte Chemie (International ed. in English) · 2026Article
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- In Silico Design and Computational Characterization of Novel Chimeric Multiepitope Antigens for Mpox Serosurveillance: An Immunoinformatics Approach.Health science reports · 2026Article
- Exploring the conformational landscape of adenylate kinase and beyond with protein folding models.Scientific reports · 2026Article
42 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors.
Funding
Abstract
Since its public release in 2021, AlphaFold2 (AF2) has made investigating biological questions, by using predicted protein structures of single monomers or full complexes, a common practice. ColabFold-AF2 is an open-source Jupyter Notebook inside Google Colaboratory and a command-line tool that makes it easy to use AF2 while exposing its advanced options. ColabFold-AF2 shortens turnaround times of experiments because of its optimized usage of AF2's models. In this protocol, we guide the reader through ColabFold best practices by using three scenarios: (i) monomer prediction, (ii) complex prediction and (iii) conformation sampling. The first two scenarios cover classic static structure prediction and are demonstrated on the human glycosylphosphatidylinositol transamidase protein. The third scenario demonstrates an alternative use case of the AF2 models by predicting two conformations of the human alanine serine transporter 2. Users can run the protocol without computational expertise via Google Colaboratory or in a command-line environment for advanced users. Using Google Colaboratory, it takes <2 h to run each procedure. The data and code for this protocol are available at https://protocol.colabfold.com .
Indexed as
Identifiers
39402428What Socratic holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.