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PEP-FOLD specifications

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Unique identifier OMICS_10262
Name PEP-FOLD
Interface Web user interface
Restrictions to use None
Input data Peptide amino acid sequence
Input format FASTA
Computer skills Basic
Version 3.1
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Pierre Tufféry

Publications for PEP-FOLD

PEP-FOLD citations

 (73)
library_books

Computational identification, characterization and validation of potential antigenic peptide vaccines from hrHPVs E6 proteins using immunoinformatics and computational systems biology approaches

2018
PLoS One
PMCID: 5929558
PMID: 29715318
DOI: 10.1371/journal.pone.0196484

[…] of primary sequences to pile up the antigenicity results by protein microarray data analysis., the 3d coordinates of all the selected peptides were predicted by using an online effective web server pep-fold3. for sampling the conformations of predicted peptides simulation runs was set 200 []. sopep energy function integrated in pep-fold3 was applied to cluster the diverse conformational models […]

library_books

Customized Peptide Biomaterial Synthesis via an Environment Reliant Auto Programmer Stigmergic Approach

2018
PMCID: 5951493
PMID: 29659507
DOI: 10.3390/ma11040609

[…] of a 13.8 kd peptide. thus, it can be predicated that fragment 9 acted as the linker between terminal fragments as it contained two cysteine residues. the secondary structure predictor tool (pep-fold3, rpbs, inserm umr-s 973, institut universitaire de france (iuf), paris, france) was used to predict the approximate secondary structure of the formed peptides, and the secondary structures […]

library_books

Prediction of Cell Penetrating Potential of Modified Peptides Containing Natural and Chemically Modified Residues

2018
Front Microbiol
PMCID: 5906597
PMID: 29706944
DOI: 10.3389/fmicb.2018.00725

[…] (http://webs.iiitd.edu.in/raghava/pepstrmod/) developed by our group specifically for predicting the structure of the modified peptide. in case of natural peptide user can also use following servers pep-fold (thevenet et al., ) (http://bioserv.rpbs.univ-paris-diderot.fr/services/pep-fold/) and quark (xu and zhang, ) (https://zhanglab.ccmb.med.umich.edu/quark/) for predicting structure […]

library_books

Membrane permeabilizing amphiphilic peptide delivers recombinant transcription factor and CRISPR Cas9/Cpf1 ribonucleoproteins in hard to modify cells

2018
PLoS One
PMCID: 5884575
PMID: 29617431
DOI: 10.1371/journal.pone.0195558

[…] representations of cm18-ptd4 and 6his-cm18-ptd4 peptides were obtained from the following peptide prediction software: http://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::pep-fold. secondary structure predictions in were performed with psspred (http://zhanglab.ccmb.med.umich.edu/psspred/) and psipred (http://bioinf.cs.ucl.ac.uk/psipred/) softwares., nuclei […]

library_books

Probing the quality control mechanism of the Escherichia coli twin arginine translocase with folding variants of a de novo–designed heme protein

2018
PMCID: 5936819
PMID: 29559557
DOI: 10.1074/jbc.RA117.000880

[…] biomolecules and protein-cofactor complexes, particularly those that may cause toxicity to the host., to generate illustrative structural models for bt6, the amino acid sequence was run through the pep-fold structure prediction algorithm () for a total of 100 simulations, from which the five best-scoring structures were selected for further analysis. all five structures were four-helix bundles […]

library_books

Cell Penetrating Function of the Poly(ADP Ribose) (PAR) Binding Motif Derived from the PAR Dependent E3 Ubiquitin Ligase Iduna

2018
Int J Mol Sci
PMCID: 5877640
PMID: 29518031
DOI: 10.3390/ijms19030779

[…] vector (c). the recombinants were expressed in an escherichia coli bl21 (de3) system and purified (d) as previously described []. the 3d structure of cpps was predicted using the modeling tool pep-fold3 (available online: http://bioserv.rpbs.univ-paris-diderot.fr/services/pep-fold3/). the modeling results suggesting both monomer and tandem repeat form of tat, hph-1, and iduna form alpha […]


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PEP-FOLD institution(s)
Molécules Thérapeutiques in Silico, RPBS, INSERM UMR-S 973, Université Paris Diderot, Sorbonne Paris Cité, Paris, France; Institut de Biologie Physico Chimique, Laboratoire de Biochimie Théorique, Université Paris Diderot, Sorbonne Paris Cité, CNRS UPR 9080, France
PEP-FOLD funding source(s)
ANR-10-BINF-0003 BIP:BIP; ANR-11-INBS-0013; INSERM [UMR-S 973]; Institut Universitaire de France (IUF); Ressource Parisienne en Bioinformatique Structurale (RPBS)

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