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eFindSite specifications

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Unique identifier OMICS_08132
Name eFindSite
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.2
Stability Stable
Maintained No

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Unique identifier OMICS_08132
Name eFindSite
Interface Web user interface
Restrictions to use Academic or non-commercial use
Computer skills Basic
Version 1.2
Stability Stable
Maintained No

Maintainer


This tool is not available anymore.

Publication for eFindSite

eFindSite in publications

 (6)
PMCID: 5926073
PMID: 29731656
DOI: 10.2147/TACG.S141881

[…] wild-type structure of galns code 4fdi (due to its 2.2 å resolution) using the swiss-model platform. the x, y, and z coordinates to be used in autodock tools (version 1.5.6) were calculated with the efindsite platform (http://brylinski.cct.lsu.edu/efindsite; louisiana state university). calculations led to seven options for pocket coordinates, and the authors selected the one with the best […]

PMCID: 5847522
PMID: 29560273
DOI: 10.1038/s41540-018-0050-7

[…] proteins is generally dependent on the accuracy of pocket matching conducted against computationally predicted binding sites. on that account, we run both ematchsite and vina on pockets predicted by efindsite for ligand-bound and unbound structures in the huang dataset., the performance is assessed in fig. with the boltzmann-enhanced discrimination of receiver operating characteristic (bedroc, […]

PMCID: 5427563
PMID: 28499419
DOI: 10.1186/s12859-017-1675-z

[…] complex. moreover, fadj has a nad binding domain according to the pfam database []. interestingly, we were able to not only identify a binding pocket for nad in the fadj structure model with efindsite [], but also to dock a nad molecule to this pocket using our in-house ligand docking software esimdock [].fig. 7 , the second example is glutaminase 2 (glsa2), an amidohydrolase enzyme […]

PMCID: 4940168
PMID: 27337148
DOI: 10.1371/journal.pone.0157591

[…] (http://wlab.ethz.ch/protter/start/) [] were used for predicting the possible topology and localization of pr-1 protein. the prediction of protein-protein interaction sites was performed using the efindsite server (http://brylinski.cct.lsu.edu/content/efindsiteppi-webserver) []., the homology modeling method of swiss-model workspace (http://swissmodel.expasy.org/) [–] and the iterative […]

PMCID: 4468813
PMID: 26082804
DOI: 10.1186/s13321-015-0067-5

[…] optimized docking box size also yields an improved ranking in virtual screening. binding pockets in both datasets are derived from the experimental complex structures and, additionally, predicted by efindsite., a systematic analysis of ligand binding poses generated by autodock vina shows that the highest accuracy is achieved when the dimensions of the search space are 2.9 times larger […]


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eFindSite institution(s)
Center for Computation & Technology, Louisiana State University, Baton Rouge, LA, USA

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