ArticlePLoS computational biology2019
Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm.
Article in PLoS computational biology, 2019. 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.
- Detection of protein symmetry and structural rearrangements using secondary structure elements.Protein science : a publication of the Protein Society · 2026Article
- pLM-Repeat: Exploiting the sequence representations of protein language models for sensitive repeat detection.Protein science : a publication of the Protein Society · 2026Article
- Accurate detection of tandem repeats exposes ubiquitous reuse of biological sequences.Nucleic acids research · 2025Article
- GeomeTRe: accurate calculation of geometrical descriptors of tandem repeat proteins.Bioinformatics (Oxford, England) · 2025Article
- Tandem Repeats Provide Evidence for Convergent Evolution to Similar Protein Structures.Genome biology and evolution · 2025Article
- Primitive purine biosynthesis connects ancient geochemistry to modern metabolism.Nature ecology & evolution · 2024Article
- EncoMPASS: An encyclopedia of membrane proteins analyzed by structure and symmetry.Structure (London, England : 1993) · 2024Article
- Structured Tandem Repeats in Protein Interactions.International journal of molecular sciences · 2024Article
- Diversity and features of proteins with structural repeats.Biophysical reviews · 2023Review
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- Article
- New β-Propellers Are Continuously Amplified From Single Blades in all Major Lineages of the β-Propeller Superfamily.Frontiers in molecular biosciences · 2022Article
- Structure and stability of the designer protein WRAP-T and its permutants.Scientific reports · 2021Article
- Frequency distribution of space groups in soluble and membrane proteins and their complexes.Acta crystallographica. Section F, Structural biology communications · 2021Article
- RepeatsDB in 2021: improved data and extended classification for protein tandem repeat structures.Nucleic acids research · 2021Article
- Refining pairwise sequence alignments of membrane proteins by the incorporation of anchors.PloS one · 2021Article
- Real time structural search of the Protein Data Bank.PLoS computational biology · 2020Article
- MemSTATS: A Benchmark Set of Membrane Protein Symmetries and Pseudosymmetries.Journal of molecular biology · 2020Article
- Development and applications of artificial symmetrical proteins.Computational and structural biotechnology journal · 2020Review
- Protein three-dimensional structures at the origin of life.Interface focus · 2019Review
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6 authors.
Funding
Abstract
Many proteins fold into highly regular and repetitive three dimensional structures. The analysis of structural patterns and repeated elements is fundamental to understand protein function and evolution. We present recent improvements to the CE-Symm tool for systematically detecting and analyzing the internal symmetry and structural repeats in proteins. In addition to the accurate detection of internal symmetry, the tool is now capable of i) reporting the type of symmetry, ii) identifying the smallest repeating unit, iii) describing the arrangement of repeats with transformation operations and symmetry axes, and iv) comparing the similarity of all the internal repeats at the residue level. CE-Symm 2.0 helps the user investigate proteins with a robust and intuitive sequence-to-structure analysis, with many applications in protein classification, functional annotation and evolutionary studies. We describe the algorithmic extensions of the method and demonstrate its applications to the study of interesting cases of protein evolution.
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