LIGSITEcsc statistics

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LIGSITEcsc specifications

Information


Unique identifier OMICS_04689
Name LIGSITEcsc
Alternative name LIGSITE
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input format PDB
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Stability Stable
Requirements
g++ compiler, BALL library, PyMol
Maintained No

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Information


Unique identifier OMICS_04689
Name LIGSITEcsc
Alternative name LIGSITE
Interface Web user interface
Restrictions to use None
Input format PDB
Computer skills Basic
Stability Stable
Maintained No

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This tool is not available anymore.

Publications for LIGSITEcsc

LIGSITEcsc in publications

 (60)
PMCID: 5712783
PMID: 29225431
DOI: 10.6026/97320630013380

[…] the model quality., metapocket 2.0 was employed to determine active site of vapc9 and vapc10 []. metapocket uses consensus approach to detect ligand-binding sites by employing eight methods: ligsite, pass, surfnet, fpocket, ghecom, concavity, poc asa and q-sitefinder., protein-protein association data of 79 ta systems of mtb h37rv was extracted from string v 10.5. to completely explore […]

PMCID: 5725545
PMID: 28042767
DOI: 10.2174/1570159X15666170102145257

[…] arrangements which will be in process prior to the virtual screening []. active site of the protein which means the binding site where the inhibitors bind were analyzed and identified through ligsite. it is the platform for the prediction of the active site in which the concept of the surface solvent event and also the surface residue’s conservation degree []., in comparison […]

PMCID: 5655693
PMID: 29066752
DOI: 10.1038/s41598-017-14497-4

[…] of the c-terminal domain of npm (pdb id 2llh) for pockets on the protein surface. two pockets were identified with a good druggability score ( > 0.9), as assessed by both the fpocket and ligsite algorithms. the highest scoring pocket (pocket #1), located between helices h2 and h3, was visible in multiple conformers of the c-terminal domain of npm; another one (pocket #2), scoring […]

PMCID: 5624866
PMID: 28970579
DOI: 10.1038/s41598-017-12471-8

[…] first hand, we generated the m.tb pocketome. for this, all putative small-molecule binding pockets were identified based on a consensus of three different algorithms; pocketdepth (geometry-based), ligsite (evolutionary-based), and sitehound (energy-based). thus, a pocket was considered only if it seen identified by all the three different methods, which led to an overall of 13,858 […]

PMCID: 5453556
PMID: 28570708
DOI: 10.1371/journal.pone.0178678

[…] our approach for identifying both inhibitors and activator compounds., structures containing cryptic pockets were selected from our previously constructed msm for tem []. a python implementation of ligsite [] was used to identify pocket volume elements within representative structures from each state in this msm, where the grid step size was set to 1.0 å and the minimum number […]


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LIGSITEcsc institution(s)
Bioinformatics Group, Biotechnological Center, Technical University Dresden, Germany
LIGSITEcsc funding source(s)
Supported by EFRE project CODI and FoldUnfold.

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