3D-Garden statistics

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3D-Garden specifications

Information


Unique identifier OMICS_03775
Name 3D-Garden
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for 3D-Garden

3D-Garden in publications

 (3)
PMCID: 5398257
PMID: 28062602
DOI: 10.1042/BSR20160547

[…] used to design experiments to test the possible dimer configurations []., among all the docking programs tested by kaczor et al. [] (zdock, cluspro, hex, gramm-x, patchdock, symmdock, haddock, 3d-garden and rosetta), gramm-x performs optimally in modelling tm complexes []. this program was used to model the 5-ht4 receptor homodimer, which identified tm2/4 and tm4/6 as the potential dimer […]

PMCID: 5424782
PMID: 28516014
DOI: 10.4161/idp.25464

[…] the residues from both partners, which are likely to mediate the interaction. the docked complex model of the mbr peptide with the full-length binding partner can be obtained using software such as 3d-garden, 3d-dock suite, and cluspro 2.0. previously, studies have used the program auto dock to identify the binding sites of mbr peptides on a protein, with or without prior knowledge […]

PMCID: 2800122
PMID: 20003235
DOI: 10.1186/1471-2105-10-407

[…] invariant shape signatures (local reference frames) that are defined using pairs of points and their associated normals. the patch based comparison is also used in another docking program 3d-garden [] that compares the triangular facets of the ligand and receptor surfaces to define initial docking orientations. 3d grid-based representations, on the other hand, provide a discretized […]


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3D-Garden institution(s)
Division of Molecular Biosciences, Imperial College London, South Kensington, London, UK

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