ArticleProteins2018
Evaluation of the template-based modeling in CASP12.
Article in Proteins, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
39 citing papers in PubMed.
- Making Use of Averaging Methods in MODELLER for Protein Structure Prediction.International journal of molecular sciences · 2024Article
- Tertiary structure assessment at CASP15.Proteins · 2023Article
- Role of environmental specificity in CASP results.BMC bioinformatics · 2023Article
- Predictive Modeling and Structure Analysis of Genetic Variants in Familial Hypercholesterolemia: Implications for Diagnosis and Protein Interaction Studies.Current atherosclerosis reports · 2023Review
- Revolutionizing Medicinal Chemistry: The Application of Artificial Intelligence (AI) in Early Drug Discovery.Pharmaceuticals (Basel, Switzerland) · 2023Review
- High-throughput deep learning variant effect prediction with Sequence UNET.Genome biology · 2023Article
- Illuminating the "Twilight Zone": Advances in Difficult Protein Modeling.Methods in molecular biology (Clifton, N.J.) · 2023Article
- The SGYS motif of TAF15 prion-like domain is critical to amyloid fibril formation.Biophysical journal · 2022Article
- Modeling SARS-CoV-2 proteins in the CASP-commons experiment.Proteins · 2021Article
- Folding non-homologous proteins by coupling deep-learning contact maps with I-TASSER assembly simulations.Cell reports methods · 2021Article
- Toward the solution of the protein structure prediction problem.The Journal of biological chemistry · 2021Review
- Biomolecular Modeling and Simulation: A Prospering Multidisciplinary Field.Annual review of biophysics · 2021Article
- DNSS2: Improved ab initio protein secondary structure prediction using advanced deep learning architectures.Proteins · 2021Article
- Identification of a novel tedizolid resistance mutation in rpoB of MRSA after in vitro serial passage.The Journal of antimicrobial chemotherapy · 2021Article
- Probabilistic divergence of a template-based modelling methodology from the ideal protocol.Journal of molecular modeling · 2021Article
- High-accuracy protein structures by combining machine-learning with physics-based refinement.Proteins · 2020Article
- A single-model quality assessment method for poor quality protein structure.BMC bioinformatics · 2020Article
- Redefining PTB domain into independently functional dual cores.Biochemical and biophysical research communications · 2020Article
- Ten quick tips for homology modeling of high-resolution protein 3D structures.PLoS computational biology · 2020Article
- Improved Consensus-Fragment Selection in Template-Assisted Prediction of Protein Structures with the UNRES Force Field in CASP13.Journal of chemical information and modeling · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
Abstract
The article describes results of numerical evaluation of CASP12 models submitted on targets for which structural templates could be identified and for which servers produced models of relatively high accuracy. The emphasis is on analysis of details of models, and how well the models compete with experimental structures. Performance of contributing research groups is measured in terms of backbone accuracy, all-atom local geometry, and the ability to estimate local errors in models. Separate analyses for all participating groups and automatic servers were carried out. Compared with the last CASP, two years ago, there have been significant improvements in a number of areas, particularly the accuracy of protein backbone atoms, accuracy of sequence alignment between models and available structures, increased accuracy over that which can be obtained from simple copying of a closest template, and accuracy of modeling of sub-structures not present in the closest template. These advancements are likely associated with more effective strategies to build non-template regions of the targets ab initio, better algorithms to combine information from multiple templates, enhanced refinement methods, and better methods for estimating model accuracy.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.