IUPred protocols

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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 in pipelines

 (2)
2017
PMCID: 5400378
PMID: 28100789
DOI: 10.1093/molbev/msw241

[…] were used to obtain a consensus prediction: hnn (hierarchical neural network) (), mlrc (multivariate linear regression combination) (), phd (), and sopm (self-optimized prediction method) ()., iupred, available at http://iupred.enzim.hu/, was used to predict intrinsic disorder at residue level (). this approach is based on the different potential of folded proteins and intrinsically […]

2011
PMCID: 3212983
PMID: 21682902
DOI: 10.1186/1471-2105-12-245

[…] the 3-state predicted secondary structure (ss), real-spine3 [] for the prediction of the relative solvent accessibility (rsa), profbval [] for the b-factor and residue flexibility predictions, and iupred [] to predict globular domains. the former three methods use the pssm profiles as their inputs. second, the above predictions, profiles and sequence are used to generate a set of numerical […]


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IUPred in publications

 (326)
PMCID: 5928037
PMID: 29712973
DOI: 10.1038/s41598-018-25113-4

[…] 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 […]

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

[…] 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 […]

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

[…] [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 […]

PMCID: 5895000
PMID: 29641592
DOI: 10.1371/journal.pone.0194891

[…] prediction programs jpred [], sspro [], porter [], and gor4 [] were used to predict the secondary structure content of a single 80 amino acid tr unit. disordered region prediction programs prdos [], iupred [], disembl [], predictprotein [] were used to predict the disordered regions in trp120., far-uv circular dichroism (cd) spectroscopy was used to determine the secondary structure content […]

PMCID: 5885415
PMID: 29618355
DOI: 10.1186/s12934-018-0902-2

[…] th the carrier protein.fig. 1 table 1a anion exchange (hitrap q hp); c cation exchange (hitrap sp hp)agene originate from 3d7 unless otherwise statedbdisorder prediction score was calculated by using iupred []cthe levels of expressed protein was determined by bca kit after final step purification. expression levels are grouped into “low” (0.1–2 mg/l), “medium” (2–10 mg/l), and “high” (> 10 mg/l […]


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

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