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Predikin specifications

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Unique identifier OMICS_02433
Name Predikin
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Publication for Predikin

Predikin citations

 (10)
library_books

Analysis of the N terminal region of human MLKL, as well as two distinct MLKL isoforms, reveals new insights into necroptotic cell death

2016
Biosci Rep
PMCID: 4725247
PMID: 26704887
DOI: 10.1042/BSR20150246

[…] using the i-tasser modelling server []. all images were prepared using pymol (delano scientific llc)., phosphorylation sites were predicted using the online prediction servers netphos 2.0 [] and predikin []. predictions with predikin were made for both mlkl isoforms as rip3 kinase substrates., combined data from multiple independent experiments and containing at least three variables […]

library_books

Dynamic Alterations to α Actinin Accompanying Sarcomere Disassembly and Reassembly during Cardiomyocyte Mitosis

2015
PLoS One
PMCID: 4467976
PMID: 26076379
DOI: 10.1371/journal.pone.0129176

[…] identified by netphosk 1.0 [], networkin 3.0 [], and musite [], using rat actn2 as an input sequence (with 99% sequence homology to human and mouse). default parameters were used for all predictors. predikin 2.1 was used to identify residues in actn2 that are potentially phosphorylated by focal adhesion kinase 1 (fak1), with the suggested default cutoff of 60 []. as suggested by the authors, […]

library_books

Incorporating substrate sequence motifs and spatial amino acid composition to identify kinase specific phosphorylation sites on protein three dimensional structures

2013
BMC Bioinformatics
PMCID: 3853090
PMID: 24564522
DOI: 10.1186/1471-2105-14-S16-S2

[…] data for sequence and structure-based prediction of protein phosphorylation sites in eukaryotes. while one-dimensional amino acid sequence was observed to harbor most of the predictive power, predikin [] has proposed a method that applied the structure-based information for improving the prediction of phosphorylation sites in proteins. with an increasing interest in the structural […]

library_books

Structure and Function of Parkin, PINK1, and DJ 1, the Three Musketeers of Neuroprotection

2013
PMCID: 3630392
PMID: 23626584
DOI: 10.3389/fneur.2013.00038

[…] of pink1 substrate(s) remains a subject of much debate. studies using artificial peptide substrates indicated that proline was the preferred amino acid at the +1 position (woodroof et al., ), and predikin predicts a weak consensus phosphorylation site (sim et al., ). early studies identified the mitochondrial chaperone trap1 as a ligand and phosphorylation substrate of pink1 (pridgeon et al., […]

library_books

Identifying Protein Phosphorylation Sites with Kinase Substrate Specificity on Human Viruses

2012
PLoS One
PMCID: 3402495
PMID: 22844408
DOI: 10.1371/journal.pone.0040694

[…] requiring prior knowledge of experimentally verified substrates and its kinase, a method is developed to be able to predict kinase-specific phosphorylation sites based solely on protein sequence . predikin is a method that first demonstrated the application of structure-based information for the prediction of phosphorylation sites in proteins. the method utilized by predikin identifies […]

library_books

Regulation and Function of Protein Kinases and Phosphatases

2011
PMCID: 3238372
PMID: 22195276
DOI: 10.4061/2011/794089

[…] of the kinase []. armed with the knowledge of many known three-dimensional structures of protein kinases with the peptide substrate bound to the active site, brinkworth et al. designed the predikin program capable of predicting the optimal phosphorylation sequence from the primary structure of a protein serine/threonine kinase [, ]. besides the peptide library approaches, researchers […]


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Predikin institution(s)
School of Molecular and Microbial Sciences, University of Queensland, Brisbane, QLD, Australia; Institute for Molecular Bioscience and Special Research Centre for Functional and Applied Genomics, University of Queensland, Brisbane, QLD, Australia
Predikin funding source(s)
Supported by Australian Research Council Federation Fellowship (FF0561371) and National Health and Medical Research Council Medical Bioinformatics, Genomics and Proteomics Program (395522).

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