ProBiS-ligands statistics

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Associated diseases

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ProBiS-ligands specifications

Information


Unique identifier OMICS_04130
Name ProBiS-ligands
Interface Web user interface
Restrictions to use None
Input data One protein structure or binding site
Input format PDB
Output data Ligand 3D Viewer and a table with predicted small-molecule ligands clustered according to their predicted location on the query protein and transposed from different binding sites
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Publication for ProBiS-ligands

ProBiS-ligands in publications

 (3)
PMCID: 5114821
PMID: 27855637
DOI: 10.1186/s12859-016-1348-3

[…] and structurally different. the assessment of binding site residue predictions in casp9 [] suggests that the assessment should be made according to the chemo-type categories of the ligand. the probis-ligands server [] predicts the types of ligands that can be bound to a given structure. recently, researchers have paid attention to the differences in ligands, and many ligand-specific […]

PMCID: 4907521
PMID: 27300294
DOI: 10.1371/journal.pntd.0004772

[…] novel bmaecr lbd hits. this small library was assembled from searches done on extensive and diverse online databases (i.e., the pdb and pubchem). the initial search used the probis-charmming / probis-ligands structural bioinformatics tool (available at http://probis.nih.gov), which compares the binding site of a provided structure to all known protein binding sites in the non-redundant pdb […]

PMCID: 4594084
PMID: 26457119
DOI: 10.1186/s13321-015-0096-0

[…] range (for dihydropholate reductase from e.coli and two mammalian protein tyrosine phosphatases)., also a recently developed, freely-available web server, which enables ligand homology modeling, is probis-ligands (fig. ) [], a method that uses a fast maximum clique algorithm [] to screen the non-redundant pdb database, to find structurally similar target binding sites to user provided input […]


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ProBiS-ligands institution(s)
National Institute of Chemistry, Ljubljana, Slovenia; University of Primorska, Faculty of Mathematics, Natural Sciences and Information Technologies, Koper, Slovenia
ProBiS-ligands funding source(s)
This project was funded by the Ministry of Higher Education, Science and Technology of Slovenia and the Slovenian Research Agency [P1-0002, J1-5455].

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