ArticleMethods in molecular biology (Clifton, N.J.)2012
Evolutionary trace for prediction and redesign of protein functional sites.
Article in Methods in molecular biology (Clifton, N.J.), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
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- Evolution of the Immunoglobulin Isotypes-Variations of Biophysical Properties among Animal Classes.Biomolecules · 2023Article
- The role of junctophilin proteins in cellular function.Physiological reviews · 2022Review
- Functional Classification and Characterization of the Fungal Glycoside Hydrolase 28 Protein Family.Journal of fungi (Basel, Switzerland) · 2022Article
- Extracting phylogenetic dimensions of coevolution reveals hidden functional signals.Scientific reports · 2022Article
- Draft Genome Assembly and Annotation forMycobiology · 2022Article
- The Functional Differences between the GroEL Chaperonin ofBiomolecules · 2021Article
- CATH functional families predict functional sites in proteins.Bioinformatics (Oxford, England) · 2021Article
- DING Proteins Extend to the Extremophilic World.International journal of molecular sciences · 2021Review
- Decoding Cancer Variants of Unknown Significance for Helicase-Nuclease-RPA Complexes Orchestrating DNA Repair During Transcription and Replication.Frontiers in molecular biosciences · 2021Article
- Expression and Refolding of the Plant Chitinase FromFrontiers in bioengineering and biotechnology · 2021Article
- Evolutionary History of Alzheimer Disease-Causing Protein Family Presenilins with Pathological Implications.Journal of molecular evolution · 2020Article
- An Evolutionary Trace method defines functionally important bases and sites common to RNA families.PLoS computational biology · 2020Article
- Deep Analysis of Residue Constraints (DARC): identifying determinants of protein functional specificity.Scientific reports · 2020Article
- Sequence-structure-function relationships in class I MHC: A local frustration perspective.PloS one · 2020Article
- Article
- Split intein-mediated selection of cells containing two plasmids using a single antibiotic.Nature communications · 2019Article
- Accelerating structure-function mapping using the ViVa webtool to mine natural variation.Plant direct · 2019Article
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Authors and funding
4 authors.
Funding
Abstract
The evolutionary trace (ET) is the single most validated approach to identify protein functional determinants and to target mutational analysis, protein engineering and drug design to the most relevant sites of a protein. It applies to the entire proteome; its predictions come with a reliability score; and its results typically reach significance in most protein families with 20 or more sequence homologs. In order to identify functional hot spots, ET scans a multiple sequence alignment for residue variations that correlate with major evolutionary divergences. In case studies this enables the selective separation, recoding, or mimicry of functional sites and, on a large scale, this enables specific function predictions based on motifs built from select ET-identified residues. ET is therefore an accurate, scalable and efficient method to identify the molecular determinants of protein function and to direct their rational perturbation for therapeutic purposes. Public ET servers are located at: http://mammoth.bcm.tmc.edu/.
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