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Protocols

IUPred specifications

Information


Unique identifier OMICS_03615
Name IUPred
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Zsuzsan Dosztányi

Publication for IUPred

IUPred citations

 (387)
library_books

High‐throughput discovery of functional disordered regions: investigation of transactivation domains

2018
Mol Syst Biol
PMCID: 5949888
PMID: 29759983
DOI: 10.15252/msb.20188190

[…] acids ().Presence or absence of the 9‐amino acid TAD motif (Piskacek et al, ; four different regular expressions: http://www.med.muni.cz/9aaTAD/)Disorder propensity of the sequence (calculated using IUPRED, Dosztanyi et al, )The helicity of the sequence [as calculated by Agadir (Lacroix et al, ) and Heliquest (Gautier et al, )]General sequence properties which include molecular weight of the sequ […]

library_books

Polymorphism in merozoite surface protein 7E of Plasmodium vivax in Thailand: Natural selection related to protein secondary structure

2018
PLoS One
PMCID: 5931635
PMID: 29718980
DOI: 10.1371/journal.pone.0196765

[…] unstructured regions were analyzed by using the GeneSilico MetaDisorder service []. Prediction of anchorage or protein-protein interaction regions in disordered proteins was done by using the ANCHOR/IUPRED web server []. Haplotype diversity and its sampling variance were calculated using the DnaSP version 5.10 program []. Nucleotide diversity (π) was calculated from the mean of pairwise sequence […]

library_books

Functional and structural characterization of osteocytic MLO Y4 cell proteins encoded by genes differentially expressed in response to mechanical signals in vitro

2018
Sci Rep
PMCID: 5928037
PMID: 29712973
DOI: 10.1038/s41598-018-25113-4

[…] s was quantified by its number of PPIs. We annotated putative intrinsic disorder using a majority-vote based consensus of five predictors: three versions of the Espritz method and two versions of the IUPred method; These methods are characterized by complementary designs and were empirically demonstrated to offer strong predictive quality for the prediction of intrinsic disorder–. We used the cons […]

library_books

Structural disorder of plasmid encoded proteins in Bacteria and Archaea

2018
BMC Bioinformatics
PMCID: 5922023
PMID: 29699482
DOI: 10.1186/s12859-018-2158-6

[…] ne by using corresponding UniProt ids). The disorder level for each residue of each protein in our dataset was calculated using three different disorder predictors: PONDR VSL2b® [], IsUnstruct [] and IUpred-L [].These predictors are widely used and are based on different approaches. VSL2b is a combination of neural network predictors for both short and long disordered regions. IsUnstruct is based […]

library_books

Same agent, different messages: insight into transcriptional regulation by SIN3 isoforms

2018
PMCID: 5902990
PMID: 29665841
DOI: 10.1186/s13072-018-0188-y

[…] tylase and the histone demethylase dKDM5/LID. The SIN3 220 isoform has a unique stretch of C-terminal amino acids relative to the other isoforms. Analysis using structural prediction software such as IUPRED and ANCHOR suggests that the unique C-terminal region is unstructured and has potential protein binding affinity []. It is possible that the SIN3 220 C-terminus is involved in specialized inter […]

library_books

Deciphering the dark proteome of Chikungunya virus

2018
Sci Rep
PMCID: 5895634
PMID: 29643398
DOI: 10.1038/s41598-018-23969-0

[…] ase [UniProt ID: Q8JUX6 and Q8JUX5]. Previously, for disorder analysis, several specialized predictors have been developed, for example, PONDR® pool [PONDR® FIT, PONDR® VLS2, PONDR® VLXT], as well as IUPred, DisoPred, DisEMBL, GlobPlot, SPRITZ, and much more. To evaluate the precision of disorder predictors, several aforementioned tools were compared within the frames of the Critical Assessment of […]


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IUPred institution(s)
Institute of Enzymology, BRC, Hungarian Academy of Sciences, Budapest, Hungary

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