ArticleNucleic acids research2017
TSTMP: target selection for structural genomics of human transmembrane proteins.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed, 18 citations in OpenAlex.
- Assessing the role of evolutionary information for enhancing protein language model embeddings.Scientific reports · 2024Article
- UniTmp: unified resources for transmembrane proteins.Nucleic acids research · 2024Article
- How AlphaFold2 shaped the structural coverage of the human transmembrane proteome.Scientific reports · 2023Article
- Drug-microbiota interactions: an emerging priority for precision medicine.Signal transduction and targeted therapy · 2023Review
- Machine learning in computational modelling of membrane protein sequences and structures: From methodologies to applications.Computational and structural biotechnology journal · 2023Review
- TMbed: transmembrane proteins predicted through language model embeddings.BMC bioinformatics · 2022Article
- Partial proteolysis improves the identification of the extracellular segments of transmembrane proteins by surface biotinylation.Scientific reports · 2020Article
- The TMCrys server for supporting crystallization of transmembrane proteins.Bioinformatics (Oxford, England) · 2019Article
- TMCrys: predict propensity of success for transmembrane protein crystallization.Bioinformatics (Oxford, England) · 2018Article
- Structural genomics and the Protein Data Bank.The Journal of biological chemistryReview
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Authors and funding
4 authors at 2 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
The TSTMP database is designed to help the target selection of human transmembrane proteins for structural genomics projects and structure modeling studies. Currently, there are only 60 known 3D structures among the polytopic human transmembrane proteins and about a further 600 could be modeled using existing structures. Although there are a great number of human transmembrane protein structures left to be determined, surprisingly only a small fraction of these proteins have 'selected' (or above) status according to the current version the TargetDB/TargetTrack database. This figure is even worse regarding those transmembrane proteins that would contribute the most to the structural coverage of the human transmembrane proteome. The database was built by sorting out proteins from the human transmembrane proteome with known structure and searching for suitable model structures for the remaining proteins by combining the results of a state-of-the-art transmembrane specific fold recognition algorithm and a sequence similarity search algorithm. Proteins were searched for homologues among the human transmembrane proteins in order to select targets whose successful structure determination would lead to the best structural coverage of the human transmembrane proteome. The pipeline constructed for creating the TSTMP database guarantees to keep the database up-to-date. The database is available at http://tstmp.enzim.ttk.mta.hu.
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