ArticleBMC molecular and cell biology2019
ECOD: identification of distant homology among multidomain and transmembrane domain proteins.
Article in BMC molecular and cell biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- The distinct trimeric structure of the immunodominant chlamydial antigen Major Outer Membrane Protein.Nature communications · 2026Article
- Exploring the Terra incognita of AI-based domain classifications.Protein science : a publication of the Protein Society · 2025Article
- Maintaining the Integral Membrane Proteome: Revisiting the Functional Repertoire of Integral Membrane Proteases.Chembiochem : a European journal of chemical biology · 2025Review
- DrugDomain: The evolutionary context of drugs and small molecules bound to domains.Protein science : a publication of the Protein Society · 2024Article
- Structure classification of the proteins from Salmonella enterica pangenome revealed novel potential pathogenicity islands.Scientific reports · 2024Article
- Investigation of protein family relationships with deep learning.Bioinformatics advances · 2024Article
- Pan-cancer structurome reveals overrepresentation of beta sandwiches and underrepresentation of alpha helical domains.Scientific reports · 2023Article
- Transcriptome Analysis of Protocatechualdehyde againstFoods (Basel, Switzerland) · 2023Article
- A unified evolutionary origin for the ubiquitous protein transporters SecY and YidC.BMC biology · 2021Article
- Assessment of domain interactions in the fourteenth round of the Critical Assessment of Structure Prediction (CASP14).Proteins · 2021Article
- Target classification in the 14th round of the critical assessment of protein structure prediction (CASP14).Proteins · 2021Article
- Structure, Assembly, and Function of Tripartite Efflux and Type 1 Secretion Systems in Gram-Negative Bacteria.Chemical reviews · 2021Review
- A Fifth of the Protein World: Rossmann-like Proteins as an Evolutionarily Successful Structural unit.Journal of molecular biology · 2021Article
- Structure, lipid scrambling activity and role in autophagosome formation of ATG9A.Nature structural & molecular biology · 2020Article
- Practical Considerations for Atomistic Structure Modeling with Cryo-EM Maps.Journal of chemical information and modeling · 2020Article
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6 authors.
Funding
Abstract
The manual classification of protein domains is approaching its 20th anniversary. ECOD is our mixed manual-automatic domain classification. Over time, the types of proteins which require manual curation has changed. Depositions with complex multidomain and multichain arrangements are commonplace. Transmembrane domains are regularly classified. Repeatedly, domains which are initially believed to be novel are found to have homologous links to existing classified domains. Here we present a brief summary of recent manual curation efforts in ECOD generally combined with specific case studies of transmembrane and multidomain proteins wherein manual curation was useful for discovering new homologous relationships. We present a new taxonomy for the classification of ABC transporter transmembrane domains. We examine alternate topologies of the leucine-specific (LS) domain of Leucine tRNA-synthetase. Finally, we elaborate on a distant homologous links between two helical dimerization domains.
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