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GalaxyPepDock specifications

Information


Unique identifier OMICS_08420
Name GalaxyPepDock
Interface Web user interface
Restrictions to use None
Input data A protein structure in PDB format and a peptide sequence in FASTA format
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Chaok Seok <>

Publication for GalaxyPepDock

GalaxyPepDock citations

 (3)
library_books

Immune Informatic Analysis and Design of Peptide Vaccine From Multi epitopes Against Corynebacterium pseudotuberculosis

2018
PMCID: 5954444
PMID: 29780242
DOI: 10.1177/1177932218755337

[…] the interaction between the predicted peptides and the design of an efficient vaccine, it was necessary to identify the peptides that present interactions with the tlr2 receptor. therefore, the galaxypepdock was used, which predicts the protein-peptide complex structures and uses the 3d structure of the receptor and the peptide sequence combining information of the similar interactions […]

library_books

Role of autophagy in cell penetrating peptide transfection model

2017
PMCID: 5626743
PMID: 28974718
DOI: 10.1038/s41598-017-12747-z

[…] data bank (pdb) (http://www.rcsb.org/pdb). pf14 peptide backbone was used for peptide-protein interaction investigation with hsp70 polypeptide-binding site. the docking analysis was done by using galaxypepdock tool., rna sequencing data, which we generated and investigated in the current study, are available at geo database with accession code gse92478 […]

library_books

The pepATTRACT web server for blind, large scale peptide–protein docking

2017
PMCID: 5570166
PMID: 28460116
DOI: 10.1093/nar/gkx335

[…] given the structure of the unbound protein, the sequence of the peptide and information about the binding site. there are now several web servers that can do local protein–peptide docking, including galaxypepdock () (based on comparative modeling) and pep-fold3 (). these can be used in synergy with web servers that can predict the binding site of a protein–peptide complex (,), refine […]


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GalaxyPepDock institution(s)
Department of Chemistry, Seoul National University, Seoul, Korea
GalaxyPepDock funding source(s)
National Research Foundation of Korea funded by the Ministry of Education, Science, and Technology [2013R1A2A1A09012229, 2012M3C1A6035362, 2013R1A1A2058447]; Korea Institute of Science and Technology Information Supercomputing Centre [KSC-2013-C3–057]; Korea Health Technology R&D Project through the Korea Health Industry Development Institute, funded by the Ministry of Health and Welfare [HI14C2449]

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