Orderly order in protein intrinsic disorder distribution: disorder in 3500 proteomes from viruses and the three domains of life

By Bin Xue, A. Keith Dunker, Vladimir N Uversky, R. Sarma. 2012

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Citations in the corpus

SPOT-Disorder2: Improved Protein Intrinsic Disorder Prediction by Ensembled Deep Learning (2019, background): “This prevalence is vindicated by the fact that naturally-occurring proteins, particularly those in eukaryotes and viruses [7–9], tend to be more disordered than random sequences [10].”
IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding (2018, background): “However, these entries only provide a small sample of IDPs / IDRs that are widespread in all domains of life but are most prevalent in eukaryotic organisms (11–14).”
Genome‐scale prediction of proteins with long intrinsically disordered regions (2014, background): “3,4,34 We showed that eukaryotes have substantial amounts of chains with LDRs, with the average of 30.3% proteins with LDRs and majority of proteomes having between 25 and 40%.”
A decade and a half of protein intrinsic disorder: Biology still waits for physics (2013, background): “existing under the normal physiological conditions of 100–150 mM NaCl may not be accurate.(46) In fact, one of the strategies used by the halophilic archaea, which are salt-loving extremophilic organisms that”
Exceptionally abundant exceptions: comprehensive characterization of intrinsic disorder in all domains of life (2014, background): “We include such short segments, since they can be predicted with relatively high predictive performance [44] and they were included in some of the similar studies [28, 30].”
How Common Is Disorder? Occurrence of Disordered Residues in Four Domains of Life (2015, methodology): “31, comparable to that in eukaryotic proteomes reported in [22].”
Intrinsically Disordered Proteins and Their “Mysterious” (Meta)Physics (2019, background): “The natural abundance of intrinsic disorder was later supported by multiple comprehensive computational studies [3, 6, 17, 24, 44, 45], which are illustrated by Figure 1, where the correlation between the intrinsic disorder content and proteome size is shown for 3,484 viral, archaeal, bacterial, and”
Comprehensive review of methods for prediction of intrinsic disorder and its molecular functions (2017, background): “According to estimates between 3 and 17% of eukaryotic proteins are fully disordered, depending on an organism [4], and about 30-50% of eukaryotic proteins have at least one long (≥ 30 consecutive residues) IDR [5,4,6,3].”