Flavors of protein disorder

By Slobodan Vucetic, C. Brown, A. Keith Dunker, Zoran Obradovic. Proteins: Structure, Function, and Bioinformatics, 2003

388 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/acec1fb04e6356e24be064d7ae5beca462e14ac1

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Citations in the corpus

Prediction and functional analysis of native disorder in proteins from the three kingdoms of life. (2004, methodology): “The VL3 predictor was trained using ordinary least squares regression with partitioning of the training set to cluster various “flavors” of disorder.(10) The FoldIndex program† is based on the calculations developed by Uversky, Gillespie & Fink,(20) and predicts whether a sequence will fold by compu”
Showing your ID: intrinsic disorder as an ID for recognition, regulation and cell signaling (2005, background): “This increased prediction of disorder in eukaryotes compared with the other kingdoms has been suggested to be a consequence of the increased need for cell signaling and regulation (Dunker et al., 2000, 2001; Dunker and Obradovic, 2001; Iakoucheva et al., 2002; Vucetic et al., 2003).”
Natively unfolded proteins. (2005, background): “To overcome this problem, Dunker and co-workers [ 31 ] recently developed an algorithm that partitions protein disorder into different flavors.”
To be folded or to be unfolded? (2004, background): “…was shown that a large portion of the sequences of natively unfolded proteins contains segments of low complexity and high predicted flexibility (Wootton 1994; Dunker et al. 1998; Romero et al. 1998, 1999; Galzitskaya et al. 2000; Obradovic et al. 2003; Vucetic et al. 2003; Radivojac et al. 2004).”
Length-dependent prediction of protein intrinsic disorder (2006, methodology): “Using a supervised clustering procedure, it was discovered that there were at least three flavors (types) of long disorder, and three flavor-spe-cific disorder predictors outperformed a global predictor (VL2) on the corresponding flavors [19].”
Comprehensive large-scale assessment of intrinsic protein disorder (2015, background): “As a result, various flavors of disorder have been proposed (Vucetic et al ., 2003).”
Improved Disorder Prediction by Combination of Orthogonal Approaches (2009, background): “Disordered regions can be classified into three groups based on sequence features alone, where proteins from each group are identified by different experimental techniques”
Prediction of Protein Binding Regions in Disordered Proteins (2009, background): “Disordered binding sites are also expected to be distinguishable from general disordered sites that are not directly involved in binding. A common notion is that protein disorder comes in many flavors, and these should be targeted by specific predictio”
Intrinsically unstructured proteins and their functions (2005, background): “A signature of probable intrinsic disorder is the presence of low sequence complexity and amino-acid compositional bias, with a low content of bulky hydrophobic amino acids (Val, Leu, Ile, Met, Phe, Trp and Tyr), which would normally form the core of a folded globular protein, and a high proportion ”
Assessing protein disorder and induced folding (2005, background): “These techniques yield complementary information and allow to distinguish between different “flavors” of protein disorder.(241) The lack of ordered secondary and tertiary structure in a recombinant protein could of course also arises from a purification artefact.”
The importance of intrinsic disorder for protein phosphorylation. (2004, methodology): “Another 20 features represented the relative amino acid frequencies over the window of 25, and the outputs from five predictors of disorder [VLXT (17), VL2 and VLC, VLV, VLS ( 19 )] were also employed as features to construct the phosphorylation predictor.”