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Number of citations per year for the bioinformatics software tool PEPstrMOD

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PEPstrMOD specifications


Unique identifier OMICS_10261
Name PEPstrMOD
Alternative name PEPstr
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes



Publication for PEPstrMOD

PEPstrMOD citations


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

[…] mat) of the modified peptide as an input and does the prediction. If a user has no structural information, he/she can generate PDB structure of their peptide up to 25 residues in length using server “PEPstrMOD” (Singh et al., ) ( developed by our group specifically for predicting the structure of the modified peptide. In case of natural peptide user can […]


TopicalPdb: A database of topically delivered peptides

PLoS One
PMCID: 5809007
PMID: 29432422
DOI: 10.1371/journal.pone.0190134

[…] ll sequences were searched and mapped on PDB[]. 58 exact sequence matches obtained were assigned structures as given in PDB. For peptides, whose identical sequences were not available in PDB, we used PEPstrMOD[] to predict their structures. PEPstrMOD was used to predict the structure of 217 sequences of peptides with natural and modified residues with the length between 5 and 25. A total 69 peptid […]


Identification of putative unique immunogenic ZIKV and DENV1 4 peptides for diagnostic cellular based tests

Sci Rep
PMCID: 5524841
PMID: 28740150
DOI: 10.1038/s41598-017-05980-z

[…] port predicted antigenicity and immunogenicity in IEDB. Three-dimensional structures of chosen ZIKV and DENV peptides were first generated using the “Natural Peptides Module for Beginners” feature of PEPstrMOD with default settings, . PEPstrMOD results were then submitted to PatchDock along with a predicted binding HLA allele using the default settings. HLA alleles were chosen based on availabilit […]


Antagonistic action on NMDA/GluN2B mediated currents of two peptides that were conantokin G structure based designed

BMC Neurosci
PMCID: 5433008
PMID: 28511693
DOI: 10.1186/s12868-017-0361-4

[…] using UCSF (University of California San Francisco) Chimera software (, []), and a refined three-dimensional structure was obtained in an hydrophilic environment using PEPstr (Peptide Tertiary Structure Prediction Server; as previously described []. […]


Screening and characterization of novel specific peptides targeting MDA MB 231 claudin low breast carcinoma by computer aided phage display methodologies

BMC Cancer
PMCID: 5109716
PMID: 27842517
DOI: 10.1186/s12885-016-2937-2

[…] Data Bank (PDB) for tri-dimensional protein structures []. When protein structures were not available, they were predicted using the PHYRE2 software [] and the peptide structures were predicted using PEPstrMOD [, ]. The resulting pdb files were used in a protein-peptide analysis performed using ClusPro 2.0 [, ] in all available models, by the peptide sequences identified by phage display against t […]


Novel cationic peptide TP359 down regulates the expression of outer membrane biogenesis genes in Pseudomonas aeruginosa: a potential TP359 anti microbial mechanism

BMC Microbiol
PMCID: 4994277
PMID: 27549081
DOI: 10.1186/s12866-016-0808-2

[…] O6) was synthesized with > 95 % purity by Therapeutic Peptides Inc., (Baton Rouge, LA). The structure of TP359 was predicted de novo by converting the peptide sequence to its tertiary structure using PEPStr; a method for tertiary structure prediction of small bioactive peptides []. TP359 was one of several proprietary AMPs from Therapeutic peptides Inc. that was screened for antimicrobial activity […]

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PEPstrMOD institution(s)
Bioinformatics Centre, Institute of Microbial Technology, Chandigarh, India

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