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PEP-FOLD specifications


Unique identifier OMICS_10262
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




  • person_outline Pierre Tufféry

Publications for PEP-FOLD

PEP-FOLD citations


Computer aided design of amino acid based therapeutics: a review

Drug Des Devel Ther
PMCID: 5958949
DOI: 10.2147/DDDT.S159767

[…] elatively nonspecific.In the case of conformation-based peptide design, computational techniques were developed to predict the conformational ensembles or structure of peptides and analyze the SARs., PEP-FOLD is an online tool used to predict the 3D structures of peptides of length 9–36 residues. A remarkable suggestion from the data is that PEP-FOLD seems to solve the conformational sampling prob […]


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

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

[…] 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 [ […]


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

PMCID: 5951493
PMID: 29659507
DOI: 10.3390/ma11040609

[…] ynthesis 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 o […]


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

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

[…] ( 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., ) ( and QUARK (Xu and Zhang, ) ( for predicting structure of peptides […]


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

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

[…] Tridimensional representations of CM18-PTD4 and 6His-CM18-PTD4 peptides were obtained from the following peptide prediction software: Secondary structure predictions in were performed with PSSpred ( and Psipred ( softwares. […]


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

PMCID: 5936819
PMID: 29559557
DOI: 10.1074/jbc.RA117.000880
call_split See protocol

[…] 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 i […]


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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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