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propy specifications


Unique identifier OMICS_09955
Name propy
Alternative name protein in python
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Windows
Programming languages Python
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes


No version available



  • person_outline Yi-Zeng Liang

Publication for protein in python

propy citations


PyBioMed: a python library for various molecular representations of chemicals, proteins and DNAs and their interactions

J Cheminform
PMCID: 5861255
PMID: 29556758
DOI: 10.1186/s13321-018-0270-2

[…] molecular representation importance, some web servers and stand-alone programs, such as RDKit [], CDK [], rcdk, PaDEL [], Cinfony [], Chemopy [], ChemDes [], BioJava [], BioTriangle [], bioclipse [], propy [], PyDPI [], Biopython, repDNA [], CDK-Taverna [], protr/protrWeb [], ChemmineR [], and Rcpi [] have been established to calculate such descriptors. However, currently available solutions are o […]


Improving succinylation prediction accuracy by incorporating the secondary structure via helix, strand and coil, and evolutionary information from profile bigrams

PLoS One
PMCID: 5809022
PMID: 29432431
DOI: 10.1371/journal.pone.0191900

[…] Since its proposal, the concept known as Chou’s PseAAC, has been widely used in the area of computational proteomics [, ]. PseAAC has been recently incorporated in three software: ‘PseAAC-Builder’, ‘propy’, and ‘PseAAC-General’. The first two are aimed at creating models of Chou’s special PseAAC, whereas the third one uses the Chou’s general PseAAC []. These software considered the special modes […]


iDNAProt ES: Identification of DNA binding Proteins Using Evolutionary and Structural Features

Sci Rep
PMCID: 5668250
PMID: 29097781
DOI: 10.1038/s41598-017-14945-1

[…] d widely penetrated into nearly all the areas of computational proteomics,. Because it has been widely and increasingly used, recently three powerful open access soft-wares, called ‘PseAAC-Builder’, ‘propy’, and ‘PseAAC-General’, were established: the former two are for generating various modes of Chou’s special PseAAC; while the 3rd one for those of Chou’s general PseAAC, including not only all t […]


Active targeting co delivery system based on hollow mesoporous silica nanoparticles for antitumor therapy in ovarian cancer stem like cells

PMCID: 5549023
PMID: 28731164
DOI: 10.3892/or.2017.5829

[…] N-[(3-trimethoxysily)propy]ethylenediamine triacetic acid trisodium (100 µl), which was chosen as the donator of carboxyl, was dissolved in 10 ml anhydrous ethanol, and HMSN (10 mg) were added and the mixture was incubate […]


Fabrication of Polymeric Antireflection Film Manufactured by Anodic Aluminum Oxide Template on Dye Sensitized Solar Cells

PMCID: 5503351
DOI: 10.3390/ma10030296

[…] r. Sealing was accomplished by pressing the two electrodes together at 115 °C for a few seconds. The redox electrolyte, consisting of 0.5 M LiI, 0.05 M I2, 0.5 M 4-tert-butylpyridine (TBP), and 1 M 1-propy1-2,3-dimethylimidazolium (DMPII) mixed into 3-methoxypropionitrile (MPN), was injected into the cell by capillary forces through an injecting hole that was previously made in the counter electro […]


Prediction of HIV 1 protease cleavage site using a combination of sequence, structural, and physicochemical features

BMC Bioinformatics
PMCID: 5259813
PMID: 28155640
DOI: 10.1186/s12859-016-1337-6

[…] uding hydrophobicity, polarizability, steric properties, isoelectric point, volume, and polarity are incorporated to detect cleavage sites. Each property was encoded as 25 descriptors by PseAAC using propy 1.0 software package. The physicochemical properties were examined individually as well as in combinations. The predictive performance based on physicochemical properties for the benchmark datas […]


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propy institution(s)
Research Center of Modernization of Traditional Chinese Medicines, Central South University, Changsha, China
propy funding source(s)
National Natural Science Foundation of China (21075138, 21275164 and 11271374)

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