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SwissSidechain specifications

Information


Unique identifier OMICS_05431
Name SwissSidechain
Restrictions to use None
Maintained Yes

Maintainer


  • person_outline David Gfeller

Publication for SwissSidechain

SwissSidechain citations

 (5)
library_books

Bioinformatics and Drug Discovery

2017
Curr Top Med Chem
PMCID: 5421137
PMID: 27848897
DOI: 10.2174/1568026617666161116143440

[…] 10) binding free energy estimation, 11) QSAR, 12) ADME Toxicity. Many software packages are powerful and free, and supported by well-known institutions. These include databases such as ChEMBL [] and SwissSidechain [], software tools such as UCSF Chimera [] which is not only a 3D visualization tool but also a platform for software developers interested in structural biology, SwissSimilarity for vi […]

library_books

SwissADME: a free web tool to evaluate pharmacokinetics, drug likeness and medicinal chemistry friendliness of small molecules

2017
Sci Rep
PMCID: 5335600
PMID: 28256516
DOI: 10.1038/srep42717

[…] ther SwissDrugDesign web tools, including SwissSimilarity (virtual screening), SwissBioisostere (ligand-based design), SwissTargetPrediction (prediction of biotargets), SwissDock (molecular docking), SwissSideChain (protein modeling) and SwissParam (molecular mechanics).As a result, SwissADME has been designed to support the entire community (specialists and nonexperts) in their drug discovery end […]

library_books

Roles of d Amino Acids on the Bioactivity of Host Defense Peptides

2016
Int J Mol Sci
PMCID: 4964399
PMID: 27376281
DOI: 10.3390/ijms17071023

[…] no acids such as d-AAs. For example, PEPstrMOD [] allows structure prediction of peptides encompassing the set of 20 canonical amino acids as well as the 210 non-canonical amino acids as described in SwissSideChain []. Yongye et al. [] employed molecular dynamics simulation to investigate the cyclization of d-AA-containing peptides. Yet another study [], devised an approach known as PEPOP that all […]

library_books

PEPstrMOD: structure prediction of peptides containing natural, non natural and modified residues

2015
Biol Direct
PMCID: 4687368
PMID: 26690490
DOI: 10.1186/s13062-015-0103-4

[…] amino acids, etc. These non-natural amino acids cannot be directly handled by standard force field libraries implemented in AMBER and GROMACS. PEPstrMOD uses special force field libraries FFNCAA and SwissSideChain, to incorporate these non-natural amino acids in the peptide followed by energy minimization and molecular dynamics to generate the tertiary structure of the peptide having these modifi […]

library_books

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support

2014
Nucleic Acids Res
PMCID: 4086091
PMID: 24792157
DOI: 10.1093/nar/gku380

[…] lly mined from literature (http://www.swissbioisostere.ch), SwissParam (), which provides topology and parameters for the molecular modeling of small organic molecules (http://www.swissparam.ch), and SwissSidechain (), a database gathering information about hundreds of commercially available non-natural amino acids that can be used for in silico peptide design (http://www.swisssidechain.ch). […]

Citations

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SwissSidechain institution(s)
Swiss Institute of Bioinformatics (SIB), Quartier Sorge, Bâtiment Génopode, Lausanne, Switzerland

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