ReviewProtein science : a publication of the Protein Society2016
Classification of proteins with shared motifs and internal repeats in the ECOD database.
Review in Protein science : a publication of the Protein Society, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Piecing Together the History of Protein Folds From a Fragmented Evolutionary Record.Genome biology and evolution · 2025Article
- Refinement and curation of homologous groups facilitated by structure prediction.Protein science : a publication of the Protein Society · 2025Article
- Fused radical SAM and αKG-HExxH domain proteins contain a distinct structural fold and catalyse cyclophane formation and β-hydroxylation.Nature chemistry · 2024Article
- ECOD domain classification of 48 whole proteomes from AlphaFold Structure Database using DPAM2.PLoS computational biology · 2024Article
- Back in time to the Gly-rich prototype of the phosphate binding elementary function.Current research in structural biology · 2024Review
- DomainMapper: Accurate domain structure annotation including those with non-contiguous topologies.Protein science : a publication of the Protein Society · 2022Article
- Lonafarnib Inhibits Farnesyltransferase via Suppressing ERK Signaling Pathway to Prevent Osteoclastogenesis in Titanium Particle-Induced Osteolysis.Frontiers in pharmacology · 2022Article
- α-Helices in the Type III Secretion Effectors: A Prevalent Feature with Versatile Roles.International journal of molecular sciences · 2021Review
- Bridging Themes: Short Protein Segments Found in Different Architectures.Molecular biology and evolution · 2021Article
- Influence of circular permutations on the structure and stability of a six-fold circular symmetric designer protein.Protein science : a publication of the Protein Society · 2020Article
- β-Strand-mediated interactions of protein domains.Proteins · 2020Article
- Characterizing lineage-specific evolution and the processes driving genomic diversification in chordates.BMC evolutionary biology · 2020Article
- ECOD: identification of distant homology among multidomain and transmembrane domain proteins.BMC molecular and cell biology · 2019Article
- A sequence family database built on ECOD structural domains.Bioinformatics (Oxford, England) · 2018Article
- ProLego: tool for extracting and visualizing topological modules in protein structures.BMC bioinformatics · 2018Article
- ECOD: new developments in the evolutionary classification of domains.Nucleic acids research · 2017Article
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4 authors.
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Abstract
Proteins and their domains evolve by a set of events commonly including the duplication and divergence of small motifs. The presence of short repetitive regions in domains has generally constituted a difficult case for structural domain classifications and their hierarchies. We developed the Evolutionary Classification Of protein Domains (ECOD) in part to implement a new schema for the classification of these types of proteins. Here we document the ways in which ECOD classifies proteins with small internal repeats, widespread functional motifs, and assemblies of small domain-like fragments in its evolutionary schema. We illustrate the ways in which the structural genomics project impacted the classification and characterization of new structural domains and sequence families over the decade.
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