ArticleProtein science : a publication of the Protein Society2022
Membranome 3.0: Database of single-pass membrane proteins with AlphaFold models.
Article in Protein science : a publication of the Protein Society, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Article
- NanoporeDB: a structural resource of multimeric protein nanopores for single-molecule sensing.GigaScience · 2026Article
- Genetic Diversity, Predictive Protein Structures, and Interaction Networks of Cysteine-Rich Receptor-Like Kinases inComputational and structural biotechnology journal · 2026Article
- Artificial intelligence-based structural modeling of PSTOL1 receptor kinases in rice and sorghum.Frontiers in plant science · 2026Article
- Emerging role ofFrontiers in molecular neuroscience · 2026Article
- Cancer-associated fibroblasts expressing FSTL3 promote vasculogenic mimicry formation and drive colon cancer malignancy.Cell death & disease · 2025Article
- High-throughput discovery of transmembrane helix dimers from human single-pass membrane proteins with TOXGREEN sort-seq.PNAS nexus · 2025Article
- A Survey of Current Status in AI-Based Topology Prediction of Transmembrane Proteins.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Article
- Improving Signal and Transit Peptide Predictions Using AlphaFold2-predicted Protein Structures.Journal of molecular biology · 2024Article
- AlphaFold2 enables accurate deorphanization of ligands to single-pass receptors.bioRxiv : the preprint server for biology · 2023Article
- Structural Modeling of Cytokine-Receptor-JAK2 Signaling Complexes Using AlphaFold Multimer.Journal of chemical information and modeling · 2023Article
- Structural modeling of cytokine-receptor-JAK2 signaling complexes using AlphaFold Multimer.bioRxiv : the preprint server for biology · 2023Article
- Buffering of genetic dominance by allele-specific protein complex assembly.Science advances · 2023Article
- Novel machine learning approaches revolutionize protein knowledge.Trends in biochemical sciences · 2023Review
- AFTM: a database of transmembrane regions in the human proteome predicted by AlphaFold.Database : the journal of biological databases and curation · 2023Article
- TmAlphaFold database: membrane localization and evaluation of AlphaFold2 predicted alpha-helical transmembrane protein structures.Nucleic acids research · 2023Article
- A journey from molecule to physiology andFrontiers in pharmacology · 2023Review
- Machine learning in computational modelling of membrane protein sequences and structures: From methodologies to applications.Computational and structural biotechnology journal · 2023Review
- AlphaFold, Artificial Intelligence (AI), and Allostery.The journal of physical chemistry. B · 2022Review
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7 authors.
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Abstract
The Membranome database provides comprehensive structural information on single-pass (i.e., bitopic) membrane proteins from six evolutionarily distant organisms, including protein-protein interactions, complexes, mutations, experimental structures, and models of transmembrane α-helical dimers. We present a new version of this database, Membranome 3.0, which was significantly updated by revising the set of 5,758 bitopic proteins and incorporating models generated by AlphaFold 2 in the database. The AlphaFold models were parsed into structural domains located at the different membrane sides, modified to exclude low-confidence unstructured terminal regions and signal sequences, validated through comparison with available experimental structures, and positioned with respect to membrane boundaries. Membranome 3.0 was re-developed to facilitate visualization and comparative analysis of multiple 3D structures of proteins that belong to a specified family, complex, biological pathway, or membrane type. New tools for advanced search and analysis of proteins, their interactions, complexes, and mutations were included. The database is freely accessible at https://membranome.org.
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