ArticlePloS one2011
Disordered patterns in clustered Protein Data Bank and in eukaryotic and bacterial proteomes.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Disordered Residues and Patterns in the Protein Data Bank.Molecules (Basel, Switzerland) · 2020Article
- Proteome-scale relationships between local amino acid composition and protein fates and functions.PLoS computational biology · 2018Article
- Proteome-scale understanding of relationship between homo-repeat enrichments and protein aggregation properties.PloS one · 2018Article
- Hidden α-helical propensity segments within disordered regions of the transcriptional activator CHOP.PloS one · 2017Article
- Non-random distribution of homo-repeats: links with biological functions and human diseases.Scientific reports · 2016Article
- Resolving the ambiguity: Making sense of intrinsic disorder when PDB structures disagree.Protein science : a publication of the Protein Society · 2016Article
- How Common Is Disorder? Occurrence of Disordered Residues in Four Domains of Life.International journal of molecular sciences · 2015Article
- Phyloproteomic Analysis of 11780 Six-Residue-Long Motifs Occurrences.BioMed research international · 2015Article
- HRaP: database of occurrence of HomoRepeats and patterns in proteomes.Nucleic acids research · 2014Article
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2 authors.
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Abstract
We have constructed the clustered Protein Data Bank and obtained clusters of chains of different identity inside each cluster, http://bioinfo.protres.ru/st_pdb/. We have compiled the largest database of disordered patterns (141) from the clustered PDB where identity between chains inside of a cluster is larger or equal to 75% (version of 28 June 2010) by using simple rules of selection. The results of these analyses would help to further our understanding of the physicochemical and structural determinants of intrinsically disordered regions that serve as molecular recognition elements. We have analyzed the occurrence of the selected patterns in 97 eukaryotic and in 26 bacterial proteomes. The disordered patterns appear more often in eukaryotic than in bacterial proteomes. The matrix of correlation coefficients between numbers of proteins where a disordered pattern from the library of 141 disordered patterns appears at least once in 9 kingdoms of eukaryota and 5 phyla of bacteria have been calculated. As a rule, the correlation coefficients are higher inside of the considered kingdom than between them. The patterns with the frequent occurrence in proteomes have low complexity (PPPPP, GGGGG, EEEED, HHHH, KKKKK, SSTSS, QQQQQP), and the type of patterns vary across different proteomes, http://bioinfo.protres.ru/fp/search_new_pattern.html.
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