ArticleActa crystallographica. Section D, Biological crystallography2014
Covering complete proteomes with X-ray structures: a current snapshot.
Article in Acta crystallographica. Section D, Biological crystallography, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 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.
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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
12 citing papers in PubMed, 36 citations in OpenAlex.
- Accurate and Fast Prediction of Intrinsic Disorder Using flDPnn.Methods in molecular biology (Clifton, N.J.) · 2025Article
- PLMC: Language Model of Protein Sequences Enhances Protein Crystallization Prediction.Interdisciplinary sciences, computational life sciences · 2024Article
- Structural and functional analysis of "non-smelly" proteins.Cellular and molecular life sciences : CMLS · 2020Article
- Computational Prediction of Intrinsic Disorder in Protein Sequences with the disCoP Meta-predictor.Methods in molecular biology (Clifton, N.J.) · 2020Article
- Sequence-Derived Markers of Drug Targets and Potentially Druggable Human Proteins.Frontiers in genetics · 2019Article
- Critical evaluation of bioinformatics tools for the prediction of protein crystallization propensity.Briefings in bioinformatics · 2018Review
- ssbio: a Python framework for structural systems biology.Bioinformatics (Oxford, England) · 2018Article
- fDETECT webserver: fast predictor of propensity for protein production, purification, and crystallization.BMC bioinformatics · 2018Article
- Survey of Predictors of Propensity for Protein Production and Crystallization with Application to Predict Resolution of Crystal Structures.Current protein & peptide science · 2018Article
- TSTMP: target selection for structural genomics of human transmembrane proteins.Nucleic acids research · 2017Article
- The impact of structural genomics: the first quindecennial.Journal of structural and functional genomics · 2016Review
- Structural genomics and the Protein Data Bank.The Journal of biological chemistryReview
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
Abstract
Structural genomics programs have developed and applied structure-determination pipelines to a wide range of protein targets, facilitating the visualization of macromolecular interactions and the understanding of their molecular and biochemical functions. The fundamental question of whether three-dimensional structures of all proteins and all functional annotations can be determined using X-ray crystallography is investigated. A first-of-its-kind large-scale analysis of crystallization propensity for all proteins encoded in 1953 fully sequenced genomes was performed. It is shown that current X-ray crystallographic knowhow combined with homology modeling can provide structures for 25% of modeling families (protein clusters for which structural models can be obtained through homology modeling), with at least one structural model produced for each Gene Ontology functional annotation. The coverage varies between superkingdoms, with 19% for eukaryotes, 35% for bacteria and 49% for archaea, and with those of viruses following the coverage values of their hosts. It is shown that the crystallization propensities of proteomes from the taxonomic superkingdoms are distinct. The use of knowledge-based target selection is shown to substantially increase the ability to produce X-ray structures. It is demonstrated that the human proteome has one of the highest attainable coverage values among eukaryotes, and GPCR membrane proteins suitable for X-ray structure determination were determined.
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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.