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Glide specifications


Unique identifier OMICS_03806
Name Glide
Software type Package/Module
Interface Graphical user interface
Restrictions to use License purchase required
Operating system Unix/Linux
Computer skills Medium
Stability Stable
Maintained Yes


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Publications for Glide

Glide in publications

PMCID: 5938362
PMID: 29765366
DOI: 10.3389/fmicb.2018.00854

[…] around the sphingomyelin binding domain (residues e230 to g263). all the simulations were performed using the opls3 force field (). the docked ligand-receptor poses were analyzed in terms of glide score, a scoring function that estimate protein-ligand binding affinities ()., the 3d structures were rendered using pymol (the pymol molecular graphics system, version schrödinger, […]

PMCID: 5936786
PMID: 29761098
DOI: 10.3389/fchem.2018.00140

[…] ionization at a ph range of 5.0-9.0, the three-dimensional structures of compounds in the npd were generated with ligprep v3.3 module. standard precision (sp) and extra precision (xp) approaches of glide (friesner et al., ; halgren et al., ) were respectively adopted to dock the molecules into the binding site with the default parameters, and only the top one pose for each molecule […]

PMCID: 5915280
PMID: 29689093
DOI: 10.1371/journal.pone.0196404

[…] llc). the active site was determined by the location of kynurenine in the crystal structure. the ligands were prepared using ligprep [], using the opls-2005 force field, and were docked using glide [] with xp docking []. both enantiomers of ns-1502 and jn-03 were docked, with the best scoring pose represented in the figures., kat-ii inhibitors have been shown to reduce the production […]

PMCID: 5893771
PMID: 29670876
DOI: 10.3389/fchem.2018.00098

[…] code: 2az5) was retrieved from the protein data bank and docking was performed with maestro (schrödinger, inc., version 10.2). compound ejmc-1, s10, and 4e were docked into tnf-α dimer protein using glide docking module (friesner et al., ; halgren et al., ). the details of the docking workflow are listed below: (1) protein was prepared using the “protein preparation wizard” workflow. all water […]

PMCID: 5861128
PMID: 29559668
DOI: 10.1038/s41598-018-23246-0

[…] sophisticated rules in order to correct the lewis structure and eliminates mistakes in the ligand structures., a grid was defined around the active residues using “receptor grid generation” in glide module of schrodinger suite–. the grid enclosing the active site where staurosporine inhibitor was bound was generated with an internal size of 14 × 14 × 14 (x × y × z, å), and was large enough […]

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Glide institution(s)
Department of Chemistry, Columbia University, New York, NY, USA; Schrödinger, New York, NY, USA; Schrödinger, Portland, OR, USA; DE Shaw Research and Development, New York, NY, USA
Glide funding source(s)
This work was supported by the NIH (Grants P41 RR06892 and GM 52018).

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