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Information


Unique identifier OMICS_07609
Name SLiMPred
Alternative name Short Linear Motif Predictor
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 0.9
Stability Stable
Maintained Yes

Publication for Short Linear Motif Predictor

SLiMPred citations

 (5)
library_books

Intrinsic disorder within AKAP79 fine tunes anchored phosphatase activity toward substrates and drug sensitivity

2017
eLife
PMCID: 5653234
PMID: 28967377
DOI: 10.7554/eLife.30872.022

[…] as the C-terminal portion of the anchoring protein is more ordered (). This is consistent with evidence showing that the C-terminal region encompasses the PKA-binding helix (blue; ; ). The ANCHOR and SLiMPred programs identify regions that are predicted to adopt static conformations upon association with protein binding partners (; ). These include known binding sites within AKAP79 for protein kin […]

library_books

Predicting MoRFs in protein sequences using HMM profiles

2016
BMC Bioinformatics
PMCID: 5259822
PMID: 28155710
DOI: 10.1186/s12859-016-1375-0

[…] ibed as disordered domains.Several predictors have been developed to identify SLiMs and MoRFs in disordered protein sequences [, ], namely, MoRFpred [], ANCHOR [, ], MFSPSSMpred [], γ-MoRF-PredII [], SliMpred [], SLiMDis [] and SliMFinder []. Considering all of the above predictors, the methods for identifying SLiMs and MoRFs are different even though SLiMs and MoRFs interact within IDRs. With the […]

call_split

Design and Evaluation of Antimalarial Peptides Derived from Prediction of Short Linear Motifs in Proteins Related to Erythrocyte Invasion

2015
PLoS One
PMCID: 4454681
PMID: 26039561
DOI: 10.1371/journal.pone.0127383
call_split See protocol

[…] sequences with a predicted TM domain because SLiMs have been shown to be enriched on the cytoplasmic side of TM proteins [] and palmitoylated peptides can be targeted to membranes [, ]. We then used SLiMPred [] to predict SLiM like regions in these sequences. We filtered the predictions keeping only those where at least five residues in a row had a predicted probability of being in a SLiM of 0.5 […]

call_split

Mutations in Gamma Adducin are Associated With Inherited Cerebral Palsy

2014
PMCID: 3952628
PMID: 23836506
DOI: 10.1002/ana.23971
call_split See protocol

[…] Short linear protein-binding motifs (SLiMs) were predicted using SLiMPred (http://bioware.ucd.ie/∼compass/biowareweb/). Protein intrinsic disorder was predicted with IUPred (http://iupred.enzim.hu/). Three-class protein secondary structure (helix, strand, and coil) […]

library_books

Evaluating Caveolin Interactions: Do Proteins Interact with the Caveolin Scaffolding Domain through a Widespread Aromatic Residue Rich Motif?

2012
PLoS One
PMCID: 3444507
PMID: 23028656
DOI: 10.1371/journal.pone.0044879

[…] kelihood to undergo order-disorder transitions , . It is therefore possible to computationally predict regions where motifs are likely to occur from a protein's primary sequence. We therefore applied SLiMPred, a recent de novo web-based programme designed to predict SLiMs from both ordered and disordered protein sequences independently of experimentally defined homologues and interactors , to see […]

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SLiMPred institution(s)
Complex and Adaptive Systems Laboratory, University College Dublin, Dublin, Ireland

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